Warning: Permanently added '2620:52:6:1161:dead:beef:cafe:c138' (ED25519) to the list of known hosts. You can reproduce this build on your computer by running: sudo dnf install copr-rpmbuild /usr/bin/copr-rpmbuild --verbose --drop-resultdir --task-url https://copr.fedorainfracloud.org/backend/get-build-task/11223149-centos-stream-10-x86_64 --chroot centos-stream-10-x86_64 Version: 1.10 PID: 4870 Logging PID: 4872 Task: {'allow_user_ssh': False, 'appstream': False, 'background': True, 'build_id': 11223149, 'buildroot_pkgs': [], 'chroot': 'centos-stream-10-x86_64', 'enable_net': False, 'fedora_review': False, 'git_hash': '7d07b2b8e924675d7d033979c8cdf4eb5421b2d2', 'git_repo': 'https://copr-dist-git.fedorainfracloud.org/git/@rocm-packagers-sig/CS10-only/R', 'isolation': 'default', 'memory_reqs': 2048, 'package_name': 'R', 'package_version': '4.6.2-1', 'project_dirname': 'CS10-only', 'project_name': 'CS10-only', 'project_owner': '@rocm-packagers-sig', 'repo_priority': None, 'repos': [{'baseurl': 'https://download.copr.fedorainfracloud.org/results/@rocm-packagers-sig/CS10-only/centos-stream-10-x86_64/', 'id': 'copr_base', 'name': 'Copr repository', 'priority': None, 'repo_gpgcheck': False}], 'sandbox': '@rocm-packagers-sig/CS10-only--https://src.fedoraproject.org/user/iucar', 'source_json': {}, 'source_type': None, 'ssh_public_keys': None, 'storage': 1, 'submitter': 'https://src.fedoraproject.org/user/iucar', 'tags': [], 'task_id': '11223149-centos-stream-10-x86_64', 'timeout': 18000, 'uses_devel_repo': False, 'with_opts': [], 'without_opts': []} Running: git clone https://copr-dist-git.fedorainfracloud.org/git/@rocm-packagers-sig/CS10-only/R /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R --depth 500 --no-single-branch --recursive cmd: ['git', 'clone', 'https://copr-dist-git.fedorainfracloud.org/git/@rocm-packagers-sig/CS10-only/R', '/var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R', '--depth', '500', '--no-single-branch', '--recursive'] cwd: . rc: 0 stdout: stderr: Cloning into '/var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R'... Running: git checkout 7d07b2b8e924675d7d033979c8cdf4eb5421b2d2 -- cmd: ['git', 'checkout', '7d07b2b8e924675d7d033979c8cdf4eb5421b2d2', '--'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R rc: 0 stdout: stderr: Note: switching to '7d07b2b8e924675d7d033979c8cdf4eb5421b2d2'. You are in 'detached HEAD' state. You can look around, make experimental changes and commit them, and you can discard any commits you make in this state without impacting any branches by switching back to a branch. If you want to create a new branch to retain commits you create, you may do so (now or later) by using -c with the switch command. Example: git switch -c Or undo this operation with: git switch - Turn off this advice by setting config variable advice.detachedHead to false HEAD is now at 7d07b2b automatic import of R Running: dist-git-client sources cmd: ['dist-git-client', 'sources'] cwd: /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R rc: 0 stdout: stderr: INFO: Reading stdout from command: git rev-parse --abbrev-ref HEAD INFO: Reading stdout from command: git rev-parse HEAD INFO: Reading sources specification file: sources INFO: Downloading R-4.6.2.tar.gz INFO: Reading stdout from command: curl --help all INFO: Calling: curl -H Pragma: -H 'Accept-Encoding: identity' -o R-4.6.2.tar.gz --location --connect-timeout 60 --retry 3 --retry-delay 10 --remote-time --show-error --fail --retry-all-errors https://copr-dist-git.fedorainfracloud.org/repo/pkgs/@rocm-packagers-sig/CS10-only/R/R-4.6.2.tar.gz/md5/ee0d085febf95b03195e43cc04f8c4fb/R-4.6.2.tar.gz % Total % Received % Xferd Average Speed Time Time Time Current Dload Upload Total Spent Left Speed 100 38.07M 100 38.07M 0 0 16.53M 0 00:02 00:02 16.23M INFO: Reading stdout from command: md5sum R-4.6.2.tar.gz tail: /var/lib/copr-rpmbuild/main.log: file truncated Running (timeout=18000): unbuffer mock --spec /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R/R.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1793279136.502078 -r /var/lib/copr-rpmbuild/results/configs/child.cfg INFO: mock.py version 6.9 starting (python version = 3.14.5, NVR = mock-6.9-1.fc44), args: /usr/libexec/mock/mock --spec /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R/R.spec --sources /var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R --resultdir /var/lib/copr-rpmbuild/results --uniqueext 1793279136.502078 -r /var/lib/copr-rpmbuild/results/configs/child.cfg Start(bootstrap): init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish(bootstrap): init plugins Start: init plugins INFO: tmpfs initialized INFO: selinux enabled INFO: chroot_scan: initialized INFO: compress_logs: initialized Finish: init plugins INFO: Signal handler active Start: run INFO: Start(/var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R/R.spec) Config(centos-stream-10-x86_64) Start: clean chroot Finish: clean chroot Mock Version: 6.9 INFO: Mock Version: 6.9 Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/centos-stream-10-x86_64-bootstrap-1793279136.502078/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata INFO: Guessed host environment type: unknown INFO: Using container image: quay.io/centos/centos:stream10 INFO: Pulling image: quay.io/centos/centos:stream10 INFO: Tagging container image as mock-bootstrap-a9798fdb-39a9-4602-953b-add2186ba78a INFO: Checking that 80414f28c1bee6bebd39bfcb9b19e7a57186f660c8baf9f112a004443ff338d3 image matches host's architecture INFO: Copy content of container 80414f28c1bee6bebd39bfcb9b19e7a57186f660c8baf9f112a004443ff338d3 to /var/lib/mock/centos-stream-10-x86_64-bootstrap-1793279136.502078/root INFO: mounting 80414f28c1bee6bebd39bfcb9b19e7a57186f660c8baf9f112a004443ff338d3 with podman image mount INFO: image 80414f28c1bee6bebd39bfcb9b19e7a57186f660c8baf9f112a004443ff338d3 as /var/lib/containers/storage/overlay/c2d0602ac926eacf91d2de9d7906ad4cbe824bbc44e8c30aead13cbd8274f1ba/merged INFO: umounting image 80414f28c1bee6bebd39bfcb9b19e7a57186f660c8baf9f112a004443ff338d3 (/var/lib/containers/storage/overlay/c2d0602ac926eacf91d2de9d7906ad4cbe824bbc44e8c30aead13cbd8274f1ba/merged) with podman image umount INFO: Removing image mock-bootstrap-a9798fdb-39a9-4602-953b-add2186ba78a INFO: Package manager dnf4 detected and used (fallback) INFO: Not updating bootstrap chroot, bootstrap_image_ready=True Start(bootstrap): creating root cache Finish(bootstrap): creating root cache Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Package manager dnf4 detected and used (direct choice) INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.19.1.1-28.el10.x86_64 rpm-sequoia-1.10.2.3-1.el10.x86_64 python3-dnf-4.20.0-28.el10.noarch python3-dnf-plugins-core-4.7.0-12.el10.noarch yum-4.20.0-28.el10.noarch Start: installing minimal buildroot with dnf No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 103 kB/s | 161 kB 00:01 CentOS Stream 10 - BaseOS 798 kB/s | 2.4 MB 00:03 CentOS Stream 10 - AppStream 1.4 MB/s | 2.4 MB 00:01 CentOS Stream 10 - CRB 1.0 MB/s | 600 kB 00:00 CentOS Stream 10 - Extras packages 5.7 kB/s | 11 kB 00:01 Dependencies resolved. ================================================================================ Package Arch Version Repo Size ================================================================================ Installing: bash x86_64 5.2.26-6.el10 baseos 1.8 M bzip2 x86_64 1.0.8-25.el10 baseos 54 k centos-stream-release noarch 10.0-23.el10 baseos 29 k coreutils x86_64 9.5-14.el10 baseos 1.1 M cpio x86_64 2.15-3.el10 baseos 292 k diffutils x86_64 3.10-8.el10 baseos 409 k findutils x86_64 1:4.10.0-5.el10 baseos 551 k gawk x86_64 5.3.0-7.el10 baseos 1.1 M glibc-minimal-langpack x86_64 2.39-147.el10 baseos 25 k grep x86_64 3.11-10.el10 baseos 301 k gzip x86_64 1.13-4.el10 baseos 169 k info x86_64 7.1-6.el10 baseos 183 k patch x86_64 2.7.6-26.el10 appstream 132 k redhat-rpm-config noarch 296-1.el10 appstream 73 k rpm-build x86_64 4.19.1.1-28.el10 appstream 76 k sed x86_64 4.9-5.el10 baseos 318 k shadow-utils x86_64 2:4.15.0-13.el10 baseos 1.3 M tar x86_64 2:1.35-13.el10 baseos 867 k unzip x86_64 6.0-69.el10 baseos 190 k util-linux x86_64 2.40.2-23.el10 baseos 1.3 M which x86_64 2.21-44.el10 baseos 42 k xz x86_64 1:5.6.2-5.el10 baseos 480 k Installing dependencies: alternatives x86_64 1.30-2.el10 baseos 42 k audit-libs x86_64 4.2.1-3.el10 baseos 141 k authselect x86_64 1.5.3-1.el10 baseos 230 k authselect-libs x86_64 1.5.3-1.el10 baseos 268 k basesystem noarch 11-22.el10 baseos 4.3 k binutils x86_64 2.41-66.el10 baseos 6.4 M binutils-gold x86_64 2.41-66.el10 baseos 795 k bzip2-libs x86_64 1.0.8-25.el10 baseos 42 k ca-certificates noarch 2026.2.92_v9.0.319-100.1.el10 baseos 1.1 M centos-gpg-keys noarch 10.0-23.el10 baseos 26 k centos-stream-repos noarch 10.0-23.el10 baseos 11 k coreutils-common x86_64 9.5-14.el10 baseos 2.1 M cracklib x86_64 2.9.11-8.el10 baseos 96 k cracklib-dicts x86_64 2.9.11-8.el10 baseos 3.6 M crypto-policies noarch 20260811-1.git4dcd294.el10 baseos 95 k curl x86_64 8.12.1-8.el10 baseos 217 k cyrus-sasl-lib x86_64 2.1.28-27.el10 baseos 106 k debugedit x86_64 5.3-2.el10 appstream 87 k dwz x86_64 0.16-1.el10 appstream 140 k ed x86_64 1.20-5.el10 baseos 83 k efi-srpm-macros noarch 6-8.el10 appstream 23 k elfutils x86_64 0.197-1.el10 baseos 649 k elfutils-debuginfod-client x86_64 0.197-1.el10 baseos 45 k elfutils-default-yama-scope noarch 0.197-1.el10 baseos 10 k elfutils-libelf x86_64 0.197-1.el10 baseos 262 k elfutils-libs x86_64 0.197-1.el10 baseos 271 k file x86_64 5.45-12.el10 baseos 48 k file-libs x86_64 5.45-12.el10 baseos 763 k filesystem x86_64 3.18-17.el10 baseos 4.8 M fonts-srpm-macros noarch 1:2.0.5-18.el10 appstream 27 k forge-srpm-macros noarch 0.4.0-6.el10 appstream 21 k gdb-minimal x86_64 17.2-4.el10 appstream 4.5 M gdbm x86_64 1:1.26-15.el10 baseos 171 k gdbm-libs x86_64 1:1.26-15.el10 baseos 58 k glibc x86_64 2.39-147.el10 baseos 2.1 M glibc-common x86_64 2.39-147.el10 baseos 319 k glibc-gconv-extra x86_64 2.39-147.el10 baseos 1.7 M gmp x86_64 1:6.2.1-12.el10 baseos 318 k go-srpm-macros noarch 3.8.0-1.el10 appstream 27 k jansson x86_64 2.14-3.el10 baseos 46 k json-c x86_64 0.18-3.el10 baseos 45 k kernel-srpm-macros noarch 1.0-29.el10 appstream 8.7 k keyutils-libs x86_64 1.6.3-5.el10 baseos 33 k krb5-libs x86_64 1.21.3-11.el10 baseos 766 k libacl x86_64 2.4.0-2.el10 baseos 25 k libarchive x86_64 3.7.7-11.el10 baseos 414 k libattr x86_64 2.6.0-2.el10 baseos 18 k libblkid x86_64 2.40.2-23.el10 baseos 123 k libbrotli x86_64 1.1.0-8.el10 baseos 344 k libcap x86_64 2.69-7.el10 baseos 91 k libcap-ng x86_64 0.9.3-2.el10 baseos 33 k libcbor x86_64 0.11.0-3.el10 baseos 34 k libcom_err x86_64 1.47.1-5.el10 baseos 26 k libcurl x86_64 8.12.1-8.el10 baseos 369 k libeconf x86_64 0.6.2-4.el10 baseos 33 k libevent x86_64 2.1.13-1.el10 baseos 261 k libfdisk x86_64 2.40.2-23.el10 baseos 160 k libffi x86_64 3.4.4-10.el10 baseos 41 k libfido2 x86_64 1.14.0-7.el10 baseos 98 k libgcc x86_64 14.4.1-4.el10 baseos 130 k libgomp x86_64 14.4.1-4.el10 baseos 354 k libidn2 x86_64 2.3.7-3.el10 baseos 118 k libmount x86_64 2.40.2-23.el10 baseos 157 k libnghttp2 x86_64 1.68.0-6.el10 baseos 73 k libpkgconf x86_64 2.1.0-3.el10 baseos 39 k libpsl x86_64 0.21.5-6.el10 baseos 65 k libpwquality x86_64 1.4.5-13.el10 baseos 121 k libselinux x86_64 3.11-3.el10 baseos 100 k libsemanage x86_64 3.11-3.el10 baseos 125 k libsepol x86_64 3.11-2.el10 baseos 349 k libsmartcols x86_64 2.40.2-23.el10 baseos 82 k libssh x86_64 0.12.2-2.el10 baseos 279 k libssh-config noarch 0.12.2-2.el10 baseos 8.4 k libstdc++ x86_64 14.4.1-4.el10 baseos 914 k libtasn1 x86_64 4.20.0-5.el10 baseos 74 k libunistring x86_64 1.1-10.el10 baseos 548 k libutempter x86_64 1.2.1-15.el10 baseos 27 k libuuid x86_64 2.40.2-23.el10 baseos 27 k libverto x86_64 0.3.2-10.el10 baseos 22 k libxcrypt x86_64 4.4.36-10.el10 baseos 120 k libxml2 x86_64 2.12.5-15.el10 baseos 691 k libzstd x86_64 1.5.5-9.el10 baseos 292 k lua-libs x86_64 5.4.8-1.el10 baseos 131 k lua-srpm-macros noarch 1-15.el10 appstream 9.8 k lz4-libs x86_64 1.9.4-8.el10 baseos 68 k mpfr x86_64 4.2.1-8.el10 baseos 346 k ncurses-base noarch 6.4-15.20240127.el10 baseos 98 k ncurses-libs x86_64 6.4-15.20240127.el10 baseos 337 k ocaml-srpm-macros noarch 10-4.el10 appstream 10 k openblas-srpm-macros noarch 2-19.el10 appstream 8.7 k openldap x86_64 2.6.13-1.el10 baseos 240 k openssl-fips-provider x86_64 1:3.5.9-1.el10 baseos 813 k openssl-libs x86_64 1:3.5.9-1.el10 baseos 2.3 M p11-kit x86_64 0.26.4-1.el10 baseos 563 k p11-kit-trust x86_64 0.26.4-1.el10 baseos 140 k package-notes-srpm-macros noarch 0.5-13.el10 appstream 10 k pam x86_64 1.6.1-11.el10 baseos 585 k pam-libs x86_64 1.6.1-11.el10 baseos 55 k pcre2 x86_64 10.44-1.4.el10 baseos 246 k pcre2-syntax noarch 10.44-1.4.el10 baseos 149 k perl-srpm-macros noarch 1-57.el10 appstream 9.5 k pkgconf x86_64 2.1.0-3.el10 baseos 45 k pkgconf-m4 noarch 2.1.0-3.el10 baseos 15 k pkgconf-pkg-config x86_64 2.1.0-3.el10 baseos 11 k popt x86_64 1.19-9.el10 baseos 65 k publicsuffix-list-dafsa noarch 20240107-5.el10 baseos 59 k pyproject-srpm-macros noarch 1.23.2-1.el10 appstream 15 k python-srpm-macros noarch 3.12-11.el10 appstream 22 k qt6-srpm-macros noarch 6.10.1-1.el10 appstream 9.1 k readline x86_64 8.2-11.el10 baseos 214 k rpm x86_64 4.19.1.1-28.el10 baseos 561 k rpm-build-libs x86_64 4.19.1.1-28.el10 baseos 92 k rpm-libs x86_64 4.19.1.1-28.el10 baseos 310 k rpm-sequoia x86_64 1.10.2.3-1.el10 baseos 974 k rust-toolset-srpm-macros noarch 1.99.1-1.el10 appstream 10 k setup noarch 2.14.5-7.el10 baseos 153 k sqlite-libs x86_64 3.46.1-6.el10 baseos 744 k systemd-libs x86_64 257-35.el10 baseos 854 k util-linux-core x86_64 2.40.2-23.el10 baseos 553 k xz-libs x86_64 1:5.6.2-5.el10 baseos 111 k zip x86_64 3.0-45.el10 baseos 270 k zlib-ng-compat x86_64 2.2.3-3.el10 baseos 76 k zstd x86_64 1.5.5-9.el10 baseos 464 k Transaction Summary ================================================================================ Install 145 Packages Total download size: 61 M Installed size: 190 M Downloading Packages: (1/145): alternatives-1.30-2.el10.x86_64.rpm 63 kB/s | 42 kB 00:00 (2/145): audit-libs-4.2.1-3.el10.x86_64.rpm 169 kB/s | 141 kB 00:00 (3/145): basesystem-11-22.el10.noarch.rpm 26 kB/s | 4.3 kB 00:00 (4/145): authselect-1.5.3-1.el10.x86_64.rpm 204 kB/s | 230 kB 00:01 (5/145): authselect-libs-1.5.3-1.el10.x86_64.rp 518 kB/s | 268 kB 00:00 (6/145): binutils-gold-2.41-66.el10.x86_64.rpm 1.8 MB/s | 795 kB 00:00 (7/145): bash-5.2.26-6.el10.x86_64.rpm 2.5 MB/s | 1.8 MB 00:00 (8/145): bzip2-1.0.8-25.el10.x86_64.rpm 324 kB/s | 54 kB 00:00 (9/145): bzip2-libs-1.0.8-25.el10.x86_64.rpm 242 kB/s | 42 kB 00:00 (10/145): centos-gpg-keys-10.0-23.el10.noarch.r 146 kB/s | 26 kB 00:00 (11/145): ca-certificates-2026.2.92_v9.0.319-10 3.1 MB/s | 1.1 MB 00:00 (12/145): centos-stream-release-10.0-23.el10.no 152 kB/s | 29 kB 00:00 (13/145): centos-stream-repos-10.0-23.el10.noar 65 kB/s | 11 kB 00:00 (14/145): coreutils-9.5-14.el10.x86_64.rpm 3.2 MB/s | 1.1 MB 00:00 (15/145): binutils-2.41-66.el10.x86_64.rpm 3.9 MB/s | 6.4 MB 00:01 (16/145): cpio-2.15-3.el10.x86_64.rpm 1.7 MB/s | 292 kB 00:00 (17/145): coreutils-common-9.5-14.el10.x86_64.r 4.2 MB/s | 2.1 MB 00:00 (18/145): cracklib-2.9.11-8.el10.x86_64.rpm 583 kB/s | 96 kB 00:00 (19/145): crypto-policies-20260811-1.git4dcd294 564 kB/s | 95 kB 00:00 (20/145): curl-8.12.1-8.el10.x86_64.rpm 1.2 MB/s | 217 kB 00:00 (21/145): cyrus-sasl-lib-2.1.28-27.el10.x86_64. 592 kB/s | 106 kB 00:00 (22/145): diffutils-3.10-8.el10.x86_64.rpm 2.2 MB/s | 409 kB 00:00 (23/145): ed-1.20-5.el10.x86_64.rpm 465 kB/s | 83 kB 00:00 (24/145): elfutils-0.197-1.el10.x86_64.rpm 3.6 MB/s | 649 kB 00:00 (25/145): cracklib-dicts-2.9.11-8.el10.x86_64.r 5.2 MB/s | 3.6 MB 00:00 (26/145): elfutils-debuginfod-client-0.197-1.el 268 kB/s | 45 kB 00:00 (27/145): elfutils-default-yama-scope-0.197-1.e 61 kB/s | 10 kB 00:00 (28/145): elfutils-libelf-0.197-1.el10.x86_64.r 1.5 MB/s | 262 kB 00:00 (29/145): elfutils-libs-0.197-1.el10.x86_64.rpm 1.6 MB/s | 271 kB 00:00 (30/145): file-5.45-12.el10.x86_64.rpm 301 kB/s | 48 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kB 00:00 Importing GPG key 0x8483C65D: Userid : "CentOS (CentOS Official Signing Key) " Fingerprint: 99DB 70FA E1D7 CE22 7FB6 4882 05B5 55B3 8483 C65D From : /usr/share/distribution-gpg-keys/centos/RPM-GPG-KEY-CentOS-Official-SHA256 Key imported successfully Running transaction check Transaction check succeeded. Running transaction test Transaction test succeeded. Running transaction Running scriptlet: filesystem-3.18-17.el10.x86_64 1/1 Preparing : 1/1 Installing : libgcc-14.4.1-4.el10.x86_64 1/145 Running scriptlet: libgcc-14.4.1-4.el10.x86_64 1/145 Installing : rust-toolset-srpm-macros-1.99.1-1.el10.noarch 2/145 Installing : qt6-srpm-macros-6.10.1-1.el10.noarch 3/145 Installing : perl-srpm-macros-1-57.el10.noarch 4/145 Installing : package-notes-srpm-macros-0.5-13.el10.noarch 5/145 Installing : openblas-srpm-macros-2-19.el10.noarch 6/145 Installing : ocaml-srpm-macros-10-4.el10.noarch 7/145 Installing : kernel-srpm-macros-1.0-29.el10.noarch 8/145 Installing : publicsuffix-list-dafsa-20240107-5.el10.noarch 9/145 Installing : pkgconf-m4-2.1.0-3.el10.noarch 10/145 Installing : pcre2-syntax-10.44-1.4.el10.noarch 11/145 Installing : ncurses-base-6.4-15.20240127.el10.noarch 12/145 Installing : libssh-config-0.12.2-2.el10.noarch 13/145 Installing : coreutils-common-9.5-14.el10.x86_64 14/145 Installing : centos-gpg-keys-10.0-23.el10.noarch 15/145 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bzip2-libs-1.0.8-25.el10.x86_64 28/145 Installing : xz-libs-1:5.6.2-5.el10.x86_64 29/145 Installing : libacl-2.4.0-2.el10.x86_64 30/145 Installing : readline-8.2-11.el10.x86_64 31/145 Installing : libstdc++-14.4.1-4.el10.x86_64 32/145 Installing : libuuid-2.40.2-23.el10.x86_64 33/145 Installing : popt-1.19-9.el10.x86_64 34/145 Installing : libblkid-2.40.2-23.el10.x86_64 35/145 Installing : gmp-1:6.2.1-12.el10.x86_64 36/145 Installing : libxcrypt-4.4.36-10.el10.x86_64 37/145 Installing : libzstd-1.5.5-9.el10.x86_64 38/145 Installing : elfutils-libelf-0.197-1.el10.x86_64 39/145 Running scriptlet: crypto-policies-20260811-1.git4dcd294.el10.noarc 40/145 Installing : crypto-policies-20260811-1.git4dcd294.el10.noarc 40/145 Running scriptlet: crypto-policies-20260811-1.git4dcd294.el10.noarc 40/145 Installing : gdbm-libs-1:1.26-15.el10.x86_64 41/145 Installing : libattr-2.6.0-2.el10.x86_64 42/145 Installing : libeconf-0.6.2-4.el10.x86_64 43/145 Installing : dwz-0.16-1.el10.x86_64 44/145 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lz4-libs-1.9.4-8.el10.x86_64 65/145 Installing : pcre2-10.44-1.4.el10.x86_64 66/145 Installing : libselinux-3.11-3.el10.x86_64 67/145 Installing : sed-4.9-5.el10.x86_64 68/145 Installing : findutils-1:4.10.0-5.el10.x86_64 69/145 Installing : grep-3.11-10.el10.x86_64 70/145 Installing : xz-1:5.6.2-5.el10.x86_64 71/145 Installing : libmount-2.40.2-23.el10.x86_64 72/145 Installing : util-linux-core-2.40.2-23.el10.x86_64 73/145 Installing : libsemanage-3.11-3.el10.x86_64 74/145 Installing : shadow-utils-2:4.15.0-13.el10.x86_64 75/145 Running scriptlet: libutempter-1.2.1-15.el10.x86_64 76/145 Installing : libutempter-1.2.1-15.el10.x86_64 76/145 Installing : tar-2:1.35-13.el10.x86_64 77/145 Installing : zstd-1.5.5-9.el10.x86_64 78/145 Installing : libpsl-0.21.5-6.el10.x86_64 79/145 Installing : p11-kit-0.26.4-1.el10.x86_64 80/145 Installing : p11-kit-trust-0.26.4-1.el10.x86_64 81/145 Running scriptlet: p11-kit-trust-0.26.4-1.el10.x86_64 81/145 Installing : openssl-fips-provider-1:3.5.9-1.el10.x86_64 82/145 Installing : openssl-libs-1:3.5.9-1.el10.x86_64 83/145 Installing : coreutils-9.5-14.el10.x86_64 84/145 Running scriptlet: ca-certificates-2026.2.92_v9.0.319-100.1.el10.no 85/145 Installing : ca-certificates-2026.2.92_v9.0.319-100.1.el10.no 85/145 Running scriptlet: ca-certificates-2026.2.92_v9.0.319-100.1.el10.no 85/145 Installing : authselect-libs-1.5.3-1.el10.x86_64 86/145 Installing : gzip-1.13-4.el10.x86_64 87/145 Installing : cracklib-2.9.11-8.el10.x86_64 88/145 Installing : cracklib-dicts-2.9.11-8.el10.x86_64 89/145 Installing : libpwquality-1.4.5-13.el10.x86_64 90/145 Installing : libevent-2.1.13-1.el10.x86_64 91/145 Installing : rpm-sequoia-1.10.2.3-1.el10.x86_64 92/145 Installing : zip-3.0-45.el10.x86_64 93/145 Installing : cyrus-sasl-lib-2.1.28-27.el10.x86_64 94/145 Installing : openldap-2.6.13-1.el10.x86_64 95/145 Installing : gdbm-1:1.26-15.el10.x86_64 96/145 Installing : pam-1.6.1-11.el10.x86_64 97/145 Installing : libfdisk-2.40.2-23.el10.x86_64 98/145 Installing : libxml2-2.12.5-15.el10.x86_64 99/145 Installing : libarchive-3.7.7-11.el10.x86_64 100/145 Installing : bzip2-1.0.8-25.el10.x86_64 101/145 Installing : sqlite-libs-3.46.1-6.el10.x86_64 102/145 Installing : rpm-libs-4.19.1.1-28.el10.x86_64 103/145 Installing : ed-1.20-5.el10.x86_64 104/145 Installing : patch-2.7.6-26.el10.x86_64 105/145 Installing : elfutils-default-yama-scope-0.197-1.el10.noarch 106/145 Running scriptlet: elfutils-default-yama-scope-0.197-1.el10.noarch 106/145 Installing : cpio-2.15-3.el10.x86_64 107/145 Installing : diffutils-3.10-8.el10.x86_64 108/145 Installing : keyutils-libs-1.6.3-5.el10.x86_64 109/145 Installing : libbrotli-1.1.0-8.el10.x86_64 110/145 Installing : libcbor-0.11.0-3.el10.x86_64 111/145 Installing : libfido2-1.14.0-7.el10.x86_64 112/145 Installing : libcom_err-1.47.1-5.el10.x86_64 113/145 Installing : libgomp-14.4.1-4.el10.x86_64 114/145 Installing : libnghttp2-1.68.0-6.el10.x86_64 115/145 Installing : libpkgconf-2.1.0-3.el10.x86_64 116/145 Installing : pkgconf-2.1.0-3.el10.x86_64 117/145 Installing : pkgconf-pkg-config-2.1.0-3.el10.x86_64 118/145 Installing : libverto-0.3.2-10.el10.x86_64 119/145 Installing : krb5-libs-1.21.3-11.el10.x86_64 120/145 Installing : libssh-0.12.2-2.el10.x86_64 121/145 Installing : libcurl-8.12.1-8.el10.x86_64 122/145 Installing : elfutils-libs-0.197-1.el10.x86_64 123/145 Installing : elfutils-debuginfod-client-0.197-1.el10.x86_64 124/145 Installing : binutils-gold-2.41-66.el10.x86_64 125/145 Running scriptlet: binutils-gold-2.41-66.el10.x86_64 125/145 Installing : binutils-2.41-66.el10.x86_64 126/145 Running scriptlet: binutils-2.41-66.el10.x86_64 126/145 Installing : elfutils-0.197-1.el10.x86_64 127/145 Installing : gdb-minimal-17.2-4.el10.x86_64 128/145 Installing : debugedit-5.3-2.el10.x86_64 129/145 Installing : rpm-build-libs-4.19.1.1-28.el10.x86_64 130/145 Installing : curl-8.12.1-8.el10.x86_64 131/145 Running scriptlet: rpm-4.19.1.1-28.el10.x86_64 132/145 Installing : rpm-4.19.1.1-28.el10.x86_64 132/145 Installing : efi-srpm-macros-6-8.el10.noarch 133/145 Installing : lua-srpm-macros-1-15.el10.noarch 134/145 Installing : fonts-srpm-macros-1:2.0.5-18.el10.noarch 135/145 Installing : forge-srpm-macros-0.4.0-6.el10.noarch 136/145 Installing : go-srpm-macros-3.8.0-1.el10.noarch 137/145 Installing : python-srpm-macros-3.12-11.el10.noarch 138/145 Installing : redhat-rpm-config-296-1.el10.noarch 139/145 Installing : rpm-build-4.19.1.1-28.el10.x86_64 140/145 Installing : pyproject-srpm-macros-1.23.2-1.el10.noarch 141/145 Installing : util-linux-2.40.2-23.el10.x86_64 142/145 Running scriptlet: util-linux-2.40.2-23.el10.x86_64 142/145 Installing : authselect-1.5.3-1.el10.x86_64 143/145 Installing : which-2.21-44.el10.x86_64 144/145 Installing : info-7.1-6.el10.x86_64 145/145 Running scriptlet: filesystem-3.18-17.el10.x86_64 145/145 Running scriptlet: ca-certificates-2026.2.92_v9.0.319-100.1.el10.no 145/145 Running scriptlet: authselect-libs-1.5.3-1.el10.x86_64 145/145 Running scriptlet: rpm-4.19.1.1-28.el10.x86_64 145/145 Running scriptlet: info-7.1-6.el10.x86_64 145/145 Installed: alternatives-1.30-2.el10.x86_64 audit-libs-4.2.1-3.el10.x86_64 authselect-1.5.3-1.el10.x86_64 authselect-libs-1.5.3-1.el10.x86_64 basesystem-11-22.el10.noarch bash-5.2.26-6.el10.x86_64 binutils-2.41-66.el10.x86_64 binutils-gold-2.41-66.el10.x86_64 bzip2-1.0.8-25.el10.x86_64 bzip2-libs-1.0.8-25.el10.x86_64 ca-certificates-2026.2.92_v9.0.319-100.1.el10.noarch centos-gpg-keys-10.0-23.el10.noarch centos-stream-release-10.0-23.el10.noarch centos-stream-repos-10.0-23.el10.noarch coreutils-9.5-14.el10.x86_64 coreutils-common-9.5-14.el10.x86_64 cpio-2.15-3.el10.x86_64 cracklib-2.9.11-8.el10.x86_64 cracklib-dicts-2.9.11-8.el10.x86_64 crypto-policies-20260811-1.git4dcd294.el10.noarch curl-8.12.1-8.el10.x86_64 cyrus-sasl-lib-2.1.28-27.el10.x86_64 debugedit-5.3-2.el10.x86_64 diffutils-3.10-8.el10.x86_64 dwz-0.16-1.el10.x86_64 ed-1.20-5.el10.x86_64 efi-srpm-macros-6-8.el10.noarch elfutils-0.197-1.el10.x86_64 elfutils-debuginfod-client-0.197-1.el10.x86_64 elfutils-default-yama-scope-0.197-1.el10.noarch elfutils-libelf-0.197-1.el10.x86_64 elfutils-libs-0.197-1.el10.x86_64 file-5.45-12.el10.x86_64 file-libs-5.45-12.el10.x86_64 filesystem-3.18-17.el10.x86_64 findutils-1:4.10.0-5.el10.x86_64 fonts-srpm-macros-1:2.0.5-18.el10.noarch forge-srpm-macros-0.4.0-6.el10.noarch gawk-5.3.0-7.el10.x86_64 gdb-minimal-17.2-4.el10.x86_64 gdbm-1:1.26-15.el10.x86_64 gdbm-libs-1:1.26-15.el10.x86_64 glibc-2.39-147.el10.x86_64 glibc-common-2.39-147.el10.x86_64 glibc-gconv-extra-2.39-147.el10.x86_64 glibc-minimal-langpack-2.39-147.el10.x86_64 gmp-1:6.2.1-12.el10.x86_64 go-srpm-macros-3.8.0-1.el10.noarch grep-3.11-10.el10.x86_64 gzip-1.13-4.el10.x86_64 info-7.1-6.el10.x86_64 jansson-2.14-3.el10.x86_64 json-c-0.18-3.el10.x86_64 kernel-srpm-macros-1.0-29.el10.noarch keyutils-libs-1.6.3-5.el10.x86_64 krb5-libs-1.21.3-11.el10.x86_64 libacl-2.4.0-2.el10.x86_64 libarchive-3.7.7-11.el10.x86_64 libattr-2.6.0-2.el10.x86_64 libblkid-2.40.2-23.el10.x86_64 libbrotli-1.1.0-8.el10.x86_64 libcap-2.69-7.el10.x86_64 libcap-ng-0.9.3-2.el10.x86_64 libcbor-0.11.0-3.el10.x86_64 libcom_err-1.47.1-5.el10.x86_64 libcurl-8.12.1-8.el10.x86_64 libeconf-0.6.2-4.el10.x86_64 libevent-2.1.13-1.el10.x86_64 libfdisk-2.40.2-23.el10.x86_64 libffi-3.4.4-10.el10.x86_64 libfido2-1.14.0-7.el10.x86_64 libgcc-14.4.1-4.el10.x86_64 libgomp-14.4.1-4.el10.x86_64 libidn2-2.3.7-3.el10.x86_64 libmount-2.40.2-23.el10.x86_64 libnghttp2-1.68.0-6.el10.x86_64 libpkgconf-2.1.0-3.el10.x86_64 libpsl-0.21.5-6.el10.x86_64 libpwquality-1.4.5-13.el10.x86_64 libselinux-3.11-3.el10.x86_64 libsemanage-3.11-3.el10.x86_64 libsepol-3.11-2.el10.x86_64 libsmartcols-2.40.2-23.el10.x86_64 libssh-0.12.2-2.el10.x86_64 libssh-config-0.12.2-2.el10.noarch libstdc++-14.4.1-4.el10.x86_64 libtasn1-4.20.0-5.el10.x86_64 libunistring-1.1-10.el10.x86_64 libutempter-1.2.1-15.el10.x86_64 libuuid-2.40.2-23.el10.x86_64 libverto-0.3.2-10.el10.x86_64 libxcrypt-4.4.36-10.el10.x86_64 libxml2-2.12.5-15.el10.x86_64 libzstd-1.5.5-9.el10.x86_64 lua-libs-5.4.8-1.el10.x86_64 lua-srpm-macros-1-15.el10.noarch lz4-libs-1.9.4-8.el10.x86_64 mpfr-4.2.1-8.el10.x86_64 ncurses-base-6.4-15.20240127.el10.noarch ncurses-libs-6.4-15.20240127.el10.x86_64 ocaml-srpm-macros-10-4.el10.noarch openblas-srpm-macros-2-19.el10.noarch openldap-2.6.13-1.el10.x86_64 openssl-fips-provider-1:3.5.9-1.el10.x86_64 openssl-libs-1:3.5.9-1.el10.x86_64 p11-kit-0.26.4-1.el10.x86_64 p11-kit-trust-0.26.4-1.el10.x86_64 package-notes-srpm-macros-0.5-13.el10.noarch pam-1.6.1-11.el10.x86_64 pam-libs-1.6.1-11.el10.x86_64 patch-2.7.6-26.el10.x86_64 pcre2-10.44-1.4.el10.x86_64 pcre2-syntax-10.44-1.4.el10.noarch perl-srpm-macros-1-57.el10.noarch pkgconf-2.1.0-3.el10.x86_64 pkgconf-m4-2.1.0-3.el10.noarch pkgconf-pkg-config-2.1.0-3.el10.x86_64 popt-1.19-9.el10.x86_64 publicsuffix-list-dafsa-20240107-5.el10.noarch pyproject-srpm-macros-1.23.2-1.el10.noarch python-srpm-macros-3.12-11.el10.noarch qt6-srpm-macros-6.10.1-1.el10.noarch readline-8.2-11.el10.x86_64 redhat-rpm-config-296-1.el10.noarch rpm-4.19.1.1-28.el10.x86_64 rpm-build-4.19.1.1-28.el10.x86_64 rpm-build-libs-4.19.1.1-28.el10.x86_64 rpm-libs-4.19.1.1-28.el10.x86_64 rpm-sequoia-1.10.2.3-1.el10.x86_64 rust-toolset-srpm-macros-1.99.1-1.el10.noarch sed-4.9-5.el10.x86_64 setup-2.14.5-7.el10.noarch shadow-utils-2:4.15.0-13.el10.x86_64 sqlite-libs-3.46.1-6.el10.x86_64 systemd-libs-257-35.el10.x86_64 tar-2:1.35-13.el10.x86_64 unzip-6.0-69.el10.x86_64 util-linux-2.40.2-23.el10.x86_64 util-linux-core-2.40.2-23.el10.x86_64 which-2.21-44.el10.x86_64 xz-1:5.6.2-5.el10.x86_64 xz-libs-1:5.6.2-5.el10.x86_64 zip-3.0-45.el10.x86_64 zlib-ng-compat-2.2.3-3.el10.x86_64 zstd-1.5.5-9.el10.x86_64 Complete! Finish: installing minimal buildroot with dnf Start: creating root cache Finish: creating root cache Finish: chroot init INFO: Installed packages: INFO: alternatives-1.30-2.el10.x86_64 audit-libs-4.2.1-3.el10.x86_64 authselect-1.5.3-1.el10.x86_64 authselect-libs-1.5.3-1.el10.x86_64 basesystem-11-22.el10.noarch bash-5.2.26-6.el10.x86_64 binutils-2.41-66.el10.x86_64 binutils-gold-2.41-66.el10.x86_64 bzip2-1.0.8-25.el10.x86_64 bzip2-libs-1.0.8-25.el10.x86_64 ca-certificates-2026.2.92_v9.0.319-100.1.el10.noarch centos-gpg-keys-10.0-23.el10.noarch centos-stream-release-10.0-23.el10.noarch centos-stream-repos-10.0-23.el10.noarch coreutils-9.5-14.el10.x86_64 coreutils-common-9.5-14.el10.x86_64 cpio-2.15-3.el10.x86_64 cracklib-2.9.11-8.el10.x86_64 cracklib-dicts-2.9.11-8.el10.x86_64 crypto-policies-20260811-1.git4dcd294.el10.noarch curl-8.12.1-8.el10.x86_64 cyrus-sasl-lib-2.1.28-27.el10.x86_64 debugedit-5.3-2.el10.x86_64 diffutils-3.10-8.el10.x86_64 dwz-0.16-1.el10.x86_64 ed-1.20-5.el10.x86_64 efi-srpm-macros-6-8.el10.noarch elfutils-0.197-1.el10.x86_64 elfutils-debuginfod-client-0.197-1.el10.x86_64 elfutils-default-yama-scope-0.197-1.el10.noarch elfutils-libelf-0.197-1.el10.x86_64 elfutils-libs-0.197-1.el10.x86_64 file-5.45-12.el10.x86_64 file-libs-5.45-12.el10.x86_64 filesystem-3.18-17.el10.x86_64 findutils-4.10.0-5.el10.x86_64 fonts-srpm-macros-2.0.5-18.el10.noarch forge-srpm-macros-0.4.0-6.el10.noarch gawk-5.3.0-7.el10.x86_64 gdb-minimal-17.2-4.el10.x86_64 gdbm-1.26-15.el10.x86_64 gdbm-libs-1.26-15.el10.x86_64 glibc-2.39-147.el10.x86_64 glibc-common-2.39-147.el10.x86_64 glibc-gconv-extra-2.39-147.el10.x86_64 glibc-minimal-langpack-2.39-147.el10.x86_64 gmp-6.2.1-12.el10.x86_64 go-srpm-macros-3.8.0-1.el10.noarch gpg-pubkey-8483c65d-5ccc5b19 grep-3.11-10.el10.x86_64 gzip-1.13-4.el10.x86_64 info-7.1-6.el10.x86_64 jansson-2.14-3.el10.x86_64 json-c-0.18-3.el10.x86_64 kernel-srpm-macros-1.0-29.el10.noarch keyutils-libs-1.6.3-5.el10.x86_64 krb5-libs-1.21.3-11.el10.x86_64 libacl-2.4.0-2.el10.x86_64 libarchive-3.7.7-11.el10.x86_64 libattr-2.6.0-2.el10.x86_64 libblkid-2.40.2-23.el10.x86_64 libbrotli-1.1.0-8.el10.x86_64 libcap-2.69-7.el10.x86_64 libcap-ng-0.9.3-2.el10.x86_64 libcbor-0.11.0-3.el10.x86_64 libcom_err-1.47.1-5.el10.x86_64 libcurl-8.12.1-8.el10.x86_64 libeconf-0.6.2-4.el10.x86_64 libevent-2.1.13-1.el10.x86_64 libfdisk-2.40.2-23.el10.x86_64 libffi-3.4.4-10.el10.x86_64 libfido2-1.14.0-7.el10.x86_64 libgcc-14.4.1-4.el10.x86_64 libgomp-14.4.1-4.el10.x86_64 libidn2-2.3.7-3.el10.x86_64 libmount-2.40.2-23.el10.x86_64 libnghttp2-1.68.0-6.el10.x86_64 libpkgconf-2.1.0-3.el10.x86_64 libpsl-0.21.5-6.el10.x86_64 libpwquality-1.4.5-13.el10.x86_64 libselinux-3.11-3.el10.x86_64 libsemanage-3.11-3.el10.x86_64 libsepol-3.11-2.el10.x86_64 libsmartcols-2.40.2-23.el10.x86_64 libssh-0.12.2-2.el10.x86_64 libssh-config-0.12.2-2.el10.noarch libstdc++-14.4.1-4.el10.x86_64 libtasn1-4.20.0-5.el10.x86_64 libunistring-1.1-10.el10.x86_64 libutempter-1.2.1-15.el10.x86_64 libuuid-2.40.2-23.el10.x86_64 libverto-0.3.2-10.el10.x86_64 libxcrypt-4.4.36-10.el10.x86_64 libxml2-2.12.5-15.el10.x86_64 libzstd-1.5.5-9.el10.x86_64 lua-libs-5.4.8-1.el10.x86_64 lua-srpm-macros-1-15.el10.noarch lz4-libs-1.9.4-8.el10.x86_64 mpfr-4.2.1-8.el10.x86_64 ncurses-base-6.4-15.20240127.el10.noarch ncurses-libs-6.4-15.20240127.el10.x86_64 ocaml-srpm-macros-10-4.el10.noarch openblas-srpm-macros-2-19.el10.noarch openldap-2.6.13-1.el10.x86_64 openssl-fips-provider-3.5.9-1.el10.x86_64 openssl-libs-3.5.9-1.el10.x86_64 p11-kit-0.26.4-1.el10.x86_64 p11-kit-trust-0.26.4-1.el10.x86_64 package-notes-srpm-macros-0.5-13.el10.noarch pam-1.6.1-11.el10.x86_64 pam-libs-1.6.1-11.el10.x86_64 patch-2.7.6-26.el10.x86_64 pcre2-10.44-1.4.el10.x86_64 pcre2-syntax-10.44-1.4.el10.noarch perl-srpm-macros-1-57.el10.noarch pkgconf-2.1.0-3.el10.x86_64 pkgconf-m4-2.1.0-3.el10.noarch pkgconf-pkg-config-2.1.0-3.el10.x86_64 popt-1.19-9.el10.x86_64 publicsuffix-list-dafsa-20240107-5.el10.noarch pyproject-srpm-macros-1.23.2-1.el10.noarch python-srpm-macros-3.12-11.el10.noarch qt6-srpm-macros-6.10.1-1.el10.noarch readline-8.2-11.el10.x86_64 redhat-rpm-config-296-1.el10.noarch rpm-4.19.1.1-28.el10.x86_64 rpm-build-4.19.1.1-28.el10.x86_64 rpm-build-libs-4.19.1.1-28.el10.x86_64 rpm-libs-4.19.1.1-28.el10.x86_64 rpm-sequoia-1.10.2.3-1.el10.x86_64 rust-toolset-srpm-macros-1.99.1-1.el10.noarch sed-4.9-5.el10.x86_64 setup-2.14.5-7.el10.noarch shadow-utils-4.15.0-13.el10.x86_64 sqlite-libs-3.46.1-6.el10.x86_64 systemd-libs-257-35.el10.x86_64 tar-1.35-13.el10.x86_64 unzip-6.0-69.el10.x86_64 util-linux-2.40.2-23.el10.x86_64 util-linux-core-2.40.2-23.el10.x86_64 which-2.21-44.el10.x86_64 xz-5.6.2-5.el10.x86_64 xz-libs-5.6.2-5.el10.x86_64 zip-3.0-45.el10.x86_64 zlib-ng-compat-2.2.3-3.el10.x86_64 zstd-1.5.5-9.el10.x86_64 Start: buildsrpm Start: rpmbuild -bs Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1793232000 Wrote: /builddir/build/SRPMS/R-4.6.2-1.el10.src.rpm Finish: rpmbuild -bs INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.rpm.log /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.librepo.log /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names Finish: buildsrpm INFO: Done(/var/lib/copr-rpmbuild/workspace/workdir-f4iisdew/R/R.spec) Config(child) 0 minutes 42 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot INFO: Start(/var/lib/copr-rpmbuild/results/R-4.6.2-1.el10.src.rpm) Config(centos-stream-10-x86_64) Start(bootstrap): chroot init INFO: mounting tmpfs at /var/lib/mock/centos-stream-10-x86_64-bootstrap-1793279136.502078/root. INFO: reusing tmpfs at /var/lib/mock/centos-stream-10-x86_64-bootstrap-1793279136.502078/root. INFO: calling preinit hooks INFO: enabled root cache INFO: enabled package manager cache Start(bootstrap): cleaning package manager metadata Finish(bootstrap): cleaning package manager metadata Finish(bootstrap): chroot init Start: chroot init INFO: mounting tmpfs at /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root. INFO: calling preinit hooks INFO: enabled root cache Start: unpacking root cache Finish: unpacking root cache INFO: enabled package manager cache Start: cleaning package manager metadata Finish: cleaning package manager metadata INFO: enabled HW Info plugin INFO: Buildroot is handled by package management downloaded with a bootstrap image: rpm-4.19.1.1-28.el10.x86_64 rpm-sequoia-1.10.2.3-1.el10.x86_64 python3-dnf-4.20.0-28.el10.noarch python3-dnf-plugins-core-4.7.0-12.el10.noarch yum-4.20.0-28.el10.noarch Finish: chroot init Start: build phase for R-4.6.2-1.el10.src.rpm Start: build setup for R-4.6.2-1.el10.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1793232000 Wrote: /builddir/build/SRPMS/R-4.6.2-1.el10.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 2.5 kB/s | 1.5 kB 00:00 CentOS Stream 10 - BaseOS 1.0 MB/s | 23 kB 00:00 CentOS Stream 10 - AppStream 1.0 MB/s | 23 kB 00:00 CentOS Stream 10 - CRB 1.0 MB/s | 22 kB 00:00 CentOS Stream 10 - Extras packages 617 kB/s | 25 kB 00:00 Dependencies resolved. ================================================================================================= Package Arch Version Repo Size ================================================================================================= Installing: autoconf noarch 2.71-13.el10 appstream 736 k automake noarch 1.16.5-20.el10 appstream 702 k bzip2-devel x86_64 1.0.8-25.el10 appstream 215 k cairo-devel x86_64 1.18.2-3.el10 appstream 194 k flexiblas-devel x86_64 3.4.2-3.el10 appstream 122 k gcc-c++ x86_64 14.4.1-4.el10 appstream 15 M gcc-gfortran x86_64 14.4.1-4.el10 appstream 14 M java-21-openjdk-devel x86_64 1:21.0.12.1.1-2.1.el10 appstream 5.0 M less x86_64 661-3.el10 baseos 191 k libICE-devel x86_64 1.1.1-5.el10 appstream 47 k libSM-devel x86_64 1.2.4-5.el10 appstream 13 k libX11-devel x86_64 1.8.13-1.el10 appstream 1.1 M libXmu-devel x86_64 1.1.4-8.el10 appstream 26 k libXt-devel x86_64 1.3.0-5.el10 appstream 477 k libcurl-devel x86_64 8.12.1-8.el10 appstream 946 k libdeflate-devel x86_64 1.26-1.el10 copr_base 16 k libicu-devel x86_64 74.2-5.el10 appstream 966 k libjpeg-turbo-devel x86_64 3.0.2-4.el10 appstream 98 k libpng-devel x86_64 2:1.6.40-13.el10 appstream 293 k libtiff-devel x86_64 4.6.0-11.el10 appstream 260 k libtirpc-devel x86_64 1.3.5-1.el10 crb 127 k libtool x86_64 2.4.7-14.el10 appstream 597 k libzstd-devel x86_64 1.5.5-9.el10 appstream 52 k ncurses-devel x86_64 6.4-15.20240127.el10 appstream 750 k pango-devel x86_64 1.54.0-4.el10 appstream 159 k pcre2-devel x86_64 10.44-1.4.el10 appstream 530 k readline-devel x86_64 8.2-11.el10 appstream 207 k tcl-devel x86_64 1:8.6.13-4.el10 appstream 170 k texinfo-tex x86_64 7.1-6.el10 crb 141 k texlive x86_64 13:20240311-6.el10 appstream 7.1 k texlive-helvetic noarch 13:20240311-6.el10 appstream 670 k texlive-times noarch 13:20240311-6.el10 appstream 376 k texlive-upquote noarch 13:20240311-6.el10 appstream 171 k tk-devel x86_64 1:8.6.13-5.el10 appstream 559 k tre-devel x86_64 0.8.0-47.20140228gitc2f5d13.el10 copr_base 12 k valgrind-devel x86_64 1:3.28.0-1.el10 appstream 49 k xz-devel x86_64 1:5.6.2-5.el10 appstream 63 k zlib-ng-compat-devel x86_64 2.2.3-3.el10 appstream 36 k Installing dependencies: adobe-mappings-cmap noarch 20230622-5.el10 appstream 2.1 M adobe-mappings-cmap-deprecated noarch 20230622-5.el10 appstream 115 k adobe-mappings-pdf noarch 20190401-9.el10 appstream 687 k alsa-lib x86_64 1.2.16.1-1.el10 appstream 547 k annobin-docs noarch 13.31-1.el10 appstream 86 k annobin-plugin-gcc x86_64 13.31-1.el10 appstream 704 k avahi-libs x86_64 0.9~rc2-7.el10 baseos 67 k brotli x86_64 1.1.0-8.el10 appstream 19 k brotli-devel x86_64 1.1.0-8.el10 appstream 33 k cairo x86_64 1.18.2-3.el10 appstream 715 k cmake-filesystem x86_64 3.31.8-1.el10 appstream 21 k cpp x86_64 14.4.1-4.el10 appstream 13 M cups-filesystem noarch 1:2.4.10-18.el10 baseos 11 k cups-libs x86_64 1:2.4.10-18.el10 baseos 260 k dbus-libs x86_64 1:1.14.10-6.el10 baseos 155 k default-fonts-core-sans noarch 4.1-3.el10 baseos 30 k emacs-filesystem noarch 1:29.4-13.el10 baseos 8.3 k expat x86_64 2.7.3-4.el10 baseos 121 k flexiblas x86_64 3.4.2-3.el10 appstream 26 k flexiblas-netlib x86_64 3.4.2-3.el10 appstream 3.2 M flexiblas-netlib64 x86_64 3.4.2-3.el10 appstream 3.1 M flexiblas-openblas-openmp x86_64 3.4.2-3.el10 appstream 18 k flexiblas-openblas-openmp64 x86_64 3.4.2-3.el10 appstream 18 k fontconfig x86_64 2.15.0-7.el10 appstream 280 k fontconfig-devel x86_64 2.15.0-7.el10 appstream 175 k fonts-filesystem noarch 1:2.0.5-18.el10 baseos 8.8 k freetype x86_64 2.13.2-8.el10 baseos 409 k freetype-devel x86_64 2.13.2-8.el10 appstream 966 k fribidi x86_64 1.0.14-4.el10 appstream 93 k fribidi-devel x86_64 1.0.14-4.el10 appstream 28 k gcc x86_64 14.4.1-4.el10 appstream 38 M gcc-plugin-annobin x86_64 14.4.1-4.el10 appstream 54 k gettext x86_64 0.22.5-6.el10 baseos 1.1 M gettext-envsubst x86_64 0.22.5-6.el10 baseos 38 k gettext-libs x86_64 0.22.5-6.el10 baseos 669 k gettext-runtime x86_64 0.22.5-6.el10 baseos 122 k ghostscript x86_64 10.02.1-17.el10 appstream 34 k ghostscript-tools-fonts noarch 10.02.1-17.el10 appstream 11 k ghostscript-tools-printing noarch 10.02.1-17.el10 appstream 11 k glib2 x86_64 2.80.4-22.el10 baseos 3.0 M glib2-devel x86_64 2.80.4-22.el10 appstream 1.5 M glibc-devel x86_64 2.39-147.el10 appstream 584 k gnutls x86_64 3.8.10-5.el10 baseos 1.5 M google-droid-sans-fonts noarch 20200215-22.el10 appstream 2.7 M google-noto-fonts-common noarch 20240401-5.el10 baseos 18 k google-noto-sans-vf-fonts noarch 20240401-5.el10 baseos 594 k graphite2 x86_64 1.3.14-17.el10 baseos 96 k graphite2-devel x86_64 1.3.14-17.el10 appstream 22 k groff-base x86_64 1.23.0-10.el10 baseos 1.1 M harfbuzz x86_64 8.4.0-6.el10 baseos 992 k harfbuzz-cairo x86_64 8.4.0-6.el10 appstream 28 k harfbuzz-devel x86_64 8.4.0-6.el10 appstream 453 k harfbuzz-icu x86_64 8.4.0-6.el10 appstream 15 k java-21-openjdk x86_64 1:21.0.12.1.1-2.1.el10 appstream 403 k java-21-openjdk-headless x86_64 1:21.0.12.1.1-2.1.el10 appstream 48 M javapackages-filesystem noarch 6.4.0-1.el10 appstream 15 k jbig2dec-libs x86_64 0.20-7.el10 appstream 76 k jbigkit-libs x86_64 2.1-31.el10 appstream 54 k kernel-headers x86_64 6.12.0-279.el10 appstream 2.3 M keyutils-libs-devel x86_64 1.6.3-5.el10 appstream 61 k krb5-devel x86_64 1.21.3-11.el10 appstream 143 k lcms2 x86_64 2.16-6.el10 appstream 182 k libICE x86_64 1.1.1-5.el10 appstream 75 k libSM x86_64 1.2.4-5.el10 appstream 44 k libX11 x86_64 1.8.13-1.el10 appstream 651 k libX11-common noarch 1.8.13-1.el10 appstream 198 k libX11-xcb x86_64 1.8.13-1.el10 appstream 11 k libXau x86_64 1.0.11-8.el10 appstream 33 k libXau-devel x86_64 1.0.11-8.el10 appstream 15 k libXcomposite x86_64 0.4.6-5.el10 appstream 25 k libXext x86_64 1.3.6-3.el10 appstream 40 k libXext-devel x86_64 1.3.6-3.el10 appstream 87 k libXft x86_64 2.3.8-8.el10 appstream 73 k libXft-devel x86_64 2.3.8-8.el10 appstream 52 k libXi x86_64 1.8.1-7.el10 appstream 41 k libXmu x86_64 1.1.4-8.el10 appstream 77 k libXrender x86_64 0.9.11-8.el10 appstream 29 k libXrender-devel x86_64 0.9.11-8.el10 appstream 20 k libXt x86_64 1.3.0-5.el10 appstream 181 k libXtst x86_64 1.2.4-8.el10 appstream 22 k libblkid-devel x86_64 2.40.2-23.el10 appstream 25 k libcom_err-devel x86_64 1.47.1-5.el10 appstream 16 k libdatrie x86_64 0.2.13-11.el10 appstream 33 k libdatrie-devel x86_64 0.2.13-11.el10 appstream 159 k libdeflate x86_64 1.26-1.el10 copr_base 64 k libffi-devel x86_64 3.4.4-10.el10 appstream 29 k libfontenc x86_64 1.1.7-5.el10 appstream 33 k libgfortran x86_64 14.4.1-4.el10 baseos 813 k libgs x86_64 10.02.1-17.el10 appstream 3.5 M libicu x86_64 74.2-5.el10 baseos 10 M libidn2-devel x86_64 2.3.7-3.el10 appstream 71 k libijs x86_64 0.35-24.el10 appstream 30 k libjpeg-turbo x86_64 3.0.2-4.el10 appstream 252 k libkadm5 x86_64 1.21.3-11.el10 baseos 76 k liblerc x86_64 4.0.0-8.el10 appstream 219 k libmount-devel x86_64 2.40.2-23.el10 appstream 25 k libmpc x86_64 1.3.1-7.el10 appstream 71 k libnghttp2-devel x86_64 1.68.0-6.el10 appstream 53 k libpaper x86_64 1:2.1.1-7.el10 appstream 28 k libpng x86_64 2:1.6.40-13.el10 baseos 120 k libpsl-devel x86_64 0.21.5-6.el10 appstream 35 k libquadmath x86_64 14.4.1-4.el10 baseos 201 k libquadmath-devel x86_64 14.4.1-4.el10 appstream 42 k libselinux-devel x86_64 3.11-3.el10 appstream 161 k libsepol-devel x86_64 3.11-2.el10 appstream 47 k libssh-devel x86_64 0.12.2-2.el10 appstream 47 k libstdc++-devel x86_64 14.4.1-4.el10 appstream 2.8 M libthai x86_64 0.1.29-10.el10 appstream 215 k libthai-devel x86_64 0.1.29-10.el10 appstream 151 k libtiff x86_64 4.6.0-11.el10 appstream 213 k libtirpc x86_64 1.3.5-1.el10 baseos 95 k libuuid-devel x86_64 2.40.2-23.el10 appstream 33 k libverto-devel x86_64 0.3.2-10.el10 appstream 15 k libwebp x86_64 1.3.2-10.el10 appstream 290 k libwebp-devel x86_64 1.3.2-10.el10 appstream 40 k libxcb x86_64 1.17.0-3.el10 appstream 255 k libxcb-devel x86_64 1.17.0-3.el10 appstream 1.6 M libxcrypt-devel x86_64 4.4.36-10.el10 appstream 30 k libxml2-devel x86_64 2.12.5-15.el10 appstream 534 k lksctp-tools x86_64 1.0.21-1.el10 baseos 94 k m4 x86_64 1.4.19-11.el10 appstream 305 k mailcap noarch 2.1.54-8.el10 baseos 35 k make x86_64 1:4.4.1-9.el10 baseos 587 k mkfontscale x86_64 1.2.2-8.el10 appstream 33 k mpdecimal x86_64 2.5.1-12.el10 baseos 90 k ncurses x86_64 6.4-15.20240127.el10 baseos 420 k ncurses-c++-libs x86_64 6.4-15.20240127.el10 appstream 36 k nspr x86_64 4.39.0-5.el10 appstream 135 k nss x86_64 3.124.0-5.el10 appstream 744 k nss-softokn x86_64 3.124.0-5.el10 appstream 417 k nss-softokn-freebl x86_64 3.124.0-5.el10 appstream 386 k nss-sysinit x86_64 3.124.0-5.el10 appstream 19 k nss-util x86_64 3.124.0-5.el10 appstream 86 k openblas x86_64 0.3.33-2.el10 appstream 46 k openblas-openmp x86_64 0.3.33-2.el10 appstream 5.3 M openblas-openmp64 x86_64 0.3.33-2.el10 appstream 5.2 M openjpeg2 x86_64 2.5.2-5.el10 appstream 188 k openssl-devel x86_64 1:3.5.9-1.el10 appstream 4.2 M pango x86_64 1.54.0-4.el10 appstream 356 k pcre2-utf16 x86_64 10.44-1.4.el10 appstream 226 k pcre2-utf32 x86_64 10.44-1.4.el10 appstream 213 k perl-AutoLoader noarch 5.74-515.el10 appstream 19 k perl-B x86_64 1.89-515.el10 appstream 176 k perl-Carp noarch 1.54-511.el10 baseos 30 k perl-Class-Struct noarch 0.68-515.el10 appstream 20 k perl-Clone x86_64 0.46-10.el10 appstream 23 k perl-Compress-Raw-Bzip2 x86_64 2.212-512.el10 appstream 36 k perl-Compress-Raw-Zlib x86_64 2.212-513.el10 appstream 64 k perl-Data-Dump noarch 1.25-13.el10 appstream 33 k perl-Data-Dumper x86_64 2.189-512.el10 baseos 57 k perl-Digest noarch 1.20-511.el10 baseos 26 k perl-Digest-HMAC noarch 1.04-12.el10 appstream 23 k perl-Digest-MD5 x86_64 2.59-6.el10 baseos 37 k perl-Digest-SHA x86_64 1:6.04-512.el10 appstream 63 k perl-DynaLoader x86_64 1.56-515.el10 appstream 24 k perl-Encode x86_64 4:3.21-511.el10 baseos 1.1 M perl-Encode-Locale noarch 1.05-31.el10 appstream 19 k perl-Errno x86_64 1.38-515.el10 appstream 13 k perl-Exporter noarch 5.78-511.el10 baseos 32 k perl-Fcntl x86_64 1.18-515.el10 appstream 28 k perl-File-Basename noarch 2.86-515.el10 appstream 15 k perl-File-Compare noarch 1.100.800-515.el10 appstream 12 k perl-File-Copy noarch 2.41-515.el10 appstream 18 k perl-File-Find noarch 1.44-515.el10 appstream 24 k perl-File-Listing noarch 6.16-5.el10 appstream 26 k perl-File-Path noarch 2.18-512.el10 appstream 35 k perl-File-Temp noarch 1:0.231.100-512.el10 baseos 60 k perl-File-stat noarch 1.14-515.el10 appstream 15 k perl-FileHandle noarch 2.05-515.el10 appstream 14 k perl-Filter x86_64 2:1.64-512.el10 appstream 89 k perl-Getopt-Long noarch 1:2.58-3.el10 baseos 65 k perl-Getopt-Std noarch 1.14-515.el10 appstream 14 k perl-HTML-Parser x86_64 3.82-3.el10 appstream 124 k perl-HTML-Tagset noarch 3.20-59.el10 appstream 19 k perl-HTTP-Cookies noarch 6.11-5.el10 appstream 38 k perl-HTTP-Date noarch 6.06-6.el10 appstream 25 k perl-HTTP-Message noarch 6.45-5.el10 appstream 99 k perl-HTTP-Negotiate noarch 6.01-40.el10 appstream 21 k perl-HTTP-Tiny noarch 0.088-512.el10 baseos 57 k perl-I18N-Langinfo x86_64 0.24-515.el10 appstream 24 k perl-IO x86_64 1.55-515.el10 appstream 79 k perl-IO-Compress noarch 2.212-513.el10 appstream 305 k perl-IO-HTML noarch 1.004-14.el10 appstream 28 k perl-IO-Socket-IP noarch 0.42-512.el10 baseos 43 k perl-IO-Socket-SSL noarch 2.085-3.el10 baseos 227 k perl-IPC-Open3 noarch 1.22-515.el10 appstream 20 k perl-LWP-MediaTypes noarch 6.04-19.el10 appstream 34 k perl-MIME-Base64 x86_64 3.16-511.el10 baseos 31 k perl-Module-Load noarch 1:0.36-511.el10 appstream 18 k perl-Mozilla-CA noarch 20231213-5.el10 baseos 15 k perl-NTLM noarch 1.09-41.el10 appstream 23 k perl-Net-HTTP noarch 6.23-6.el10 appstream 40 k perl-Net-SSLeay x86_64 1.94-9.el10 appstream 377 k perl-POSIX x86_64 2.20-515.el10 appstream 95 k perl-PathTools x86_64 3.91-512.el10 baseos 85 k perl-Pod-Escapes noarch 1:1.07-511.el10 baseos 21 k perl-Pod-Perldoc noarch 3.28.01-512.el10 baseos 84 k perl-Pod-Simple noarch 1:3.45-511.el10 baseos 218 k perl-Pod-Usage noarch 4:2.03-511.el10 baseos 41 k perl-Scalar-List-Utils x86_64 5:1.63-511.el10 baseos 74 k perl-SelectSaver noarch 1.02-515.el10 appstream 10 k perl-Socket x86_64 4:2.038-511.el10 baseos 56 k perl-Storable x86_64 1:3.32-511.el10 baseos 99 k perl-Symbol noarch 1.09-515.el10 appstream 12 k perl-Term-ANSIColor noarch 5.01-512.el10 baseos 49 k perl-Term-Cap noarch 1.18-511.el10 baseos 23 k perl-Text-ParseWords noarch 3.31-511.el10 baseos 17 k perl-Text-Tabs+Wrap noarch 2024.001-511.el10 baseos 23 k perl-Text-Unidecode noarch 1.30-27.el10 appstream 195 k perl-Thread-Queue noarch 3.14-511.el10 appstream 22 k perl-Time-Local noarch 2:1.350-511.el10 baseos 35 k perl-TimeDate noarch 1:2.33-16.el10 appstream 58 k perl-Try-Tiny noarch 0.31-12.el10 appstream 40 k perl-URI noarch 5.27-4.el10 appstream 133 k perl-Unicode-EastAsianWidth noarch 12.0-16.el10 crb 20 k perl-Unicode-Normalize x86_64 1.32-511.el10 appstream 75 k perl-WWW-RobotRules noarch 6.02-41.el10 appstream 21 k perl-XML-Parser x86_64 2.47-7.el10 appstream 238 k perl-XML-XPath noarch 1.48-8.el10 appstream 86 k perl-base noarch 2.27-515.el10 appstream 14 k perl-constant noarch 1.33-512.el10 baseos 24 k perl-encoding x86_64 4:3.00-511.el10 appstream 64 k perl-if noarch 0.61.000-515.el10 appstream 12 k perl-interpreter x86_64 4:5.40.2-515.el10 appstream 70 k perl-libintl-perl x86_64 1.33-11.el10 appstream 835 k perl-libnet noarch 3.15-512.el10 baseos 127 k perl-libs x86_64 4:5.40.2-515.el10 appstream 2.4 M perl-libwww-perl noarch 6.76-3.el10 appstream 208 k perl-locale noarch 1.12-515.el10 appstream 12 k perl-mro x86_64 1.29-515.el10 appstream 28 k perl-open noarch 1.13-515.el10 appstream 15 k perl-overload noarch 1.37-515.el10 appstream 44 k perl-overloading noarch 0.02-515.el10 appstream 11 k perl-parent noarch 1:0.241-512.el10 baseos 16 k perl-podlators noarch 1:5.01-511.el10 baseos 124 k perl-subs noarch 1.04-515.el10 appstream 10 k perl-threads x86_64 1:2.40-511.el10 appstream 59 k perl-threads-shared x86_64 1.69-511.el10 appstream 46 k perl-vars noarch 1.05-515.el10 appstream 11 k pixman x86_64 0.43.4-2.el10 appstream 286 k pixman-devel x86_64 0.43.4-2.el10 appstream 18 k publicsuffix-list noarch 20240107-5.el10 appstream 88 k python3 x86_64 3.12.15-1.el10 baseos 27 k python3-libs x86_64 3.12.15-1.el10 baseos 9.5 M python3-packaging noarch 24.2-2.el10 baseos 153 k python3-pip-wheel noarch 23.3.2-11.el10 baseos 1.5 M redhat-text-vf-fonts noarch 4.1.0-1.el10 baseos 354 k sysprof-capture-devel x86_64 47.2-1.el10 appstream 56 k tcl x86_64 1:8.6.13-4.el10 baseos 1.1 M teckit x86_64 2.5.12-4.el10 appstream 360 k texinfo x86_64 7.1-6.el10 crb 1.3 M texlive-ae noarch 13:20240311-6.el10 appstream 126 k texlive-algorithms noarch 13:20240311-6.el10 appstream 301 k texlive-alphalph noarch 13:20240311-6.el10 appstream 355 k texlive-amscls noarch 13:20240311-6.el10 appstream 1.1 M texlive-amsfonts noarch 13:20240311-6.el10 appstream 4.8 M texlive-amsmath noarch 13:20240311-6.el10 appstream 2.3 M texlive-anysize noarch 13:20240311-6.el10 appstream 46 k texlive-atbegshi noarch 13:20240311-6.el10 appstream 403 k texlive-attachfile noarch 13:20240311-6.el10 appstream 353 k texlive-attachfile2 noarch 13:20240311-6.el10 appstream 465 k texlive-atveryend noarch 13:20240311-6.el10 appstream 379 k texlive-auxhook noarch 13:20240311-6.el10 appstream 289 k texlive-avantgar noarch 13:20240311-6.el10 appstream 327 k texlive-babel noarch 13:20240311-6.el10 appstream 1.7 M texlive-babel-english noarch 13:20240311-6.el10 appstream 142 k texlive-babelbib noarch 13:20240311-6.el10 appstream 1.2 M texlive-base noarch 13:20240311-6.el10 appstream 2.8 M texlive-beamer noarch 13:20240311-6.el10 appstream 2.7 M texlive-bera noarch 13:20240311-6.el10 appstream 382 k texlive-beton noarch 13:20240311-6.el10 appstream 72 k texlive-bibtex x86_64 13:20240311-6.el10 appstream 1.6 M texlive-bidi noarch 13:20240311-6.el10 appstream 4.2 M texlive-bigintcalc noarch 13:20240311-6.el10 appstream 460 k texlive-bitset noarch 13:20240311-6.el10 appstream 614 k texlive-bookman noarch 13:20240311-6.el10 appstream 375 k texlive-bookmark noarch 13:20240311-6.el10 appstream 480 k texlive-booktabs noarch 13:20240311-6.el10 appstream 300 k texlive-breakurl noarch 13:20240311-6.el10 appstream 120 k texlive-breqn noarch 13:20240311-6.el10 appstream 1.0 M texlive-caption noarch 13:20240311-6.el10 appstream 812 k texlive-carlisle noarch 13:20240311-6.el10 appstream 93 k texlive-catchfile noarch 13:20240311-6.el10 appstream 301 k texlive-changepage noarch 13:20240311-6.el10 appstream 283 k texlive-charter noarch 13:20240311-6.el10 appstream 209 k texlive-chngcntr noarch 13:20240311-6.el10 appstream 240 k texlive-cite noarch 13:20240311-6.el10 appstream 245 k texlive-cm noarch 13:20240311-6.el10 appstream 335 k texlive-cm-super noarch 13:20240311-6.el10 appstream 62 M texlive-cmap noarch 13:20240311-6.el10 appstream 20 k texlive-cmextra noarch 13:20240311-6.el10 appstream 48 k texlive-collection-basic noarch 13:20240311-6.el10 appstream 7.6 k texlive-collection-fontsrecommended noarch 13:20240311-6.el10 appstream 7.5 k texlive-collection-latex noarch 13:20240311-6.el10 appstream 7.8 k texlive-collection-latexrecommended noarch 13:20240311-6.el10 appstream 8.3 k texlive-colorprofiles noarch 13:20240311-6.el10 appstream 141 k texlive-colortbl noarch 13:20240311-6.el10 appstream 641 k texlive-count1to noarch 13:20240311-6.el10 appstream 537 k texlive-courier noarch 13:20240311-6.el10 appstream 529 k texlive-crop noarch 13:20240311-6.el10 appstream 332 k texlive-csquotes noarch 13:20240311-6.el10 appstream 346 k texlive-ctable noarch 13:20240311-6.el10 appstream 701 k texlive-currfile noarch 13:20240311-6.el10 appstream 191 k texlive-dvipdfmx x86_64 13:20240311-6.el10 appstream 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noarch 13:20240311-6.el10 appstream 214 k texlive-fancybox noarch 13:20240311-6.el10 appstream 289 k texlive-fancyhdr noarch 13:20240311-6.el10 appstream 847 k texlive-fancyref noarch 13:20240311-6.el10 appstream 116 k texlive-fancyvrb noarch 13:20240311-6.el10 appstream 199 k texlive-filecontents noarch 13:20240311-6.el10 appstream 286 k texlive-filehook noarch 13:20240311-6.el10 appstream 317 k texlive-finstrut noarch 13:20240311-6.el10 appstream 185 k texlive-firstaid noarch 13:20240311-6.el10 appstream 281 k texlive-fix2col noarch 13:20240311-6.el10 appstream 220 k texlive-float noarch 13:20240311-6.el10 appstream 124 k texlive-fontspec noarch 13:20240311-6.el10 appstream 1.1 M texlive-footmisc noarch 13:20240311-6.el10 appstream 518 k texlive-footnotehyper noarch 13:20240311-6.el10 appstream 95 k texlive-fp noarch 13:20240311-6.el10 appstream 246 k texlive-fpl noarch 13:20240311-6.el10 appstream 307 k texlive-geometry noarch 13:20240311-6.el10 appstream 857 k texlive-gettitlestring noarch 13:20240311-6.el10 appstream 321 k texlive-glyphlist noarch 13:20240311-6.el10 appstream 37 k texlive-graphics noarch 13:20240311-6.el10 appstream 2.4 M texlive-graphics-cfg noarch 13:20240311-6.el10 appstream 13 k texlive-graphics-def noarch 13:20240311-6.el10 appstream 23 k texlive-grfext noarch 13:20240311-6.el10 appstream 312 k texlive-grffile noarch 13:20240311-6.el10 appstream 354 k texlive-hobsub noarch 13:20240311-6.el10 appstream 72 k texlive-hologo noarch 13:20240311-6.el10 appstream 581 k texlive-hopatch noarch 13:20240311-6.el10 appstream 323 k texlive-hycolor noarch 13:20240311-6.el10 appstream 378 k texlive-hypcap noarch 13:20240311-6.el10 appstream 297 k texlive-hypdoc noarch 13:20240311-6.el10 appstream 331 k texlive-hyperref noarch 13:20240311-6.el10 appstream 3.9 M texlive-hyph-utf8 noarch 13:20240311-6.el10 appstream 303 k texlive-hyphen-base noarch 13:20240311-6.el10 appstream 34 k texlive-hyphenex noarch 13:20240311-6.el10 appstream 20 k texlive-ifmtarg noarch 13:20240311-6.el10 appstream 48 k texlive-ifplatform noarch 13:20240311-6.el10 appstream 160 k texlive-iftex noarch 13:20240311-6.el10 appstream 237 k texlive-index noarch 13:20240311-6.el10 appstream 177 k texlive-infwarerr noarch 13:20240311-6.el10 appstream 289 k texlive-intcalc noarch 13:20240311-6.el10 appstream 426 k texlive-jknapltx noarch 13:20240311-6.el10 appstream 27 k texlive-kastrup noarch 13:20240311-6.el10 appstream 148 k texlive-knuth-lib noarch 13:20240311-6.el10 appstream 50 k texlive-knuth-local noarch 13:20240311-6.el10 appstream 43 k texlive-koma-script noarch 13:20240311-6.el10 appstream 6.3 M texlive-kpathsea x86_64 13:20240311-6.el10 appstream 1.1 M texlive-kvdefinekeys noarch 13:20240311-6.el10 appstream 300 k texlive-kvoptions noarch 13:20240311-6.el10 appstream 488 k texlive-kvsetkeys noarch 13:20240311-6.el10 appstream 393 k texlive-l3backend noarch 13:20240311-6.el10 appstream 867 k texlive-l3experimental noarch 13:20240311-6.el10 appstream 2.8 M texlive-l3kernel noarch 13:20240311-6.el10 appstream 12 M texlive-l3packages noarch 13:20240311-6.el10 appstream 1.4 M texlive-latex noarch 13:20240311-6.el10 appstream 34 M texlive-latex-fonts noarch 13:20240311-6.el10 appstream 48 k texlive-latexbug noarch 13:20240311-6.el10 appstream 233 k texlive-latexconfig noarch 13:20240311-6.el10 appstream 14 k texlive-letltxmacro noarch 13:20240311-6.el10 appstream 294 k texlive-lib x86_64 13:20240311-6.el10 appstream 234 k texlive-lineno noarch 13:20240311-6.el10 appstream 879 k texlive-listings noarch 13:20240311-6.el10 appstream 2.8 M texlive-lm noarch 13:20240311-6.el10 appstream 14 M texlive-lm-math noarch 13:20240311-6.el10 appstream 535 k texlive-ltabptch noarch 13:20240311-6.el10 appstream 274 k texlive-ltxcmds noarch 13:20240311-6.el10 appstream 408 k texlive-ltxmisc noarch 13:20240311-6.el10 appstream 28 k texlive-lua-alt-getopt noarch 13:20240311-6.el10 appstream 17 k texlive-lua-uni-algos noarch 13:20240311-6.el10 appstream 91 k texlive-luahbtex x86_64 13:20240311-6.el10 appstream 2.0 M texlive-lualatex-math noarch 13:20240311-6.el10 appstream 210 k texlive-lualibs noarch 13:20240311-6.el10 appstream 241 k texlive-luaotfload noarch 13:20240311-6.el10 appstream 1.2 M texlive-luatex x86_64 13:20240311-6.el10 appstream 3.8 M texlive-luatexbase noarch 13:20240311-6.el10 appstream 272 k texlive-lwarp noarch 13:20240311-6.el10 appstream 3.6 M texlive-makecmds noarch 13:20240311-6.el10 appstream 125 k texlive-makeindex x86_64 13:20240311-6.el10 appstream 436 k texlive-manfnt-font noarch 13:20240311-6.el10 appstream 37 k texlive-marginnote noarch 13:20240311-6.el10 appstream 471 k texlive-marvosym noarch 13:20240311-6.el10 appstream 562 k texlive-mathpazo noarch 13:20240311-6.el10 appstream 449 k texlive-mathspec noarch 13:20240311-6.el10 appstream 188 k texlive-mathtools noarch 13:20240311-6.el10 appstream 1.0 M texlive-mdwtools noarch 13:20240311-6.el10 appstream 1.6 M texlive-memoir noarch 13:20240311-6.el10 appstream 3.1 M texlive-metafont x86_64 13:20240311-6.el10 appstream 263 k texlive-metalogo noarch 13:20240311-6.el10 appstream 90 k texlive-mflogo noarch 13:20240311-6.el10 appstream 246 k texlive-mflogo-font noarch 13:20240311-6.el10 appstream 34 k texlive-mfnfss noarch 13:20240311-6.el10 appstream 449 k texlive-mfware x86_64 13:20240311-6.el10 appstream 103 k texlive-microtype noarch 13:20240311-6.el10 appstream 2.6 M texlive-minitoc noarch 13:20240311-6.el10 appstream 125 k texlive-mnsymbol noarch 13:20240311-6.el10 appstream 4.7 M texlive-modes noarch 13:20240311-6.el10 appstream 306 k texlive-mparhack noarch 13:20240311-6.el10 appstream 312 k texlive-mptopdf noarch 13:20240311-6.el10 appstream 52 k texlive-multido noarch 13:20240311-6.el10 appstream 120 k texlive-multitoc noarch 13:20240311-6.el10 appstream 281 k texlive-natbib noarch 13:20240311-6.el10 appstream 439 k texlive-ncntrsbk noarch 13:20240311-6.el10 appstream 369 k texlive-newfloat noarch 13:20240311-6.el10 appstream 134 k texlive-notoccite noarch 13:20240311-6.el10 appstream 232 k texlive-ntgclass noarch 13:20240311-6.el10 appstream 1.6 M texlive-oberdiek noarch 13:20240311-6.el10 appstream 7.1 M texlive-palatino noarch 13:20240311-6.el10 appstream 436 k texlive-paralist noarch 13:20240311-6.el10 appstream 218 k texlive-parallel noarch 13:20240311-6.el10 appstream 129 k texlive-parskip noarch 13:20240311-6.el10 appstream 317 k texlive-pdfcol noarch 13:20240311-6.el10 appstream 321 k texlive-pdfcolfoot noarch 13:20240311-6.el10 appstream 314 k texlive-pdfcolmk noarch 13:20240311-6.el10 appstream 13 k texlive-pdfescape noarch 13:20240311-6.el10 appstream 347 k texlive-pdflscape noarch 13:20240311-6.el10 appstream 318 k texlive-pdfmanagement-testphase noarch 13:20240311-6.el10 appstream 8.2 M texlive-pdfpages noarch 13:20240311-6.el10 appstream 341 k texlive-pdftex x86_64 13:20240311-6.el10 appstream 3.2 M texlive-pdftexcmds noarch 13:20240311-6.el10 appstream 385 k texlive-pgf noarch 13:20240311-6.el10 appstream 10 M texlive-placeins noarch 13:20240311-6.el10 appstream 263 k texlive-plain noarch 13:20240311-6.el10 appstream 45 k texlive-polyglossia noarch 13:20240311-6.el10 appstream 912 k texlive-psfrag noarch 13:20240311-6.el10 appstream 84 k texlive-pslatex noarch 13:20240311-6.el10 appstream 20 k texlive-psnfss noarch 13:20240311-6.el10 appstream 318 k texlive-pspicture noarch 13:20240311-6.el10 appstream 55 k texlive-pst-3d noarch 13:20240311-6.el10 appstream 114 k texlive-pst-arrow noarch 13:20240311-6.el10 appstream 153 k texlive-pst-coil noarch 13:20240311-6.el10 appstream 3.5 M texlive-pst-eps noarch 13:20240311-6.el10 appstream 93 k texlive-pst-fill noarch 13:20240311-6.el10 appstream 840 k texlive-pst-grad noarch 13:20240311-6.el10 appstream 227 k texlive-pst-math noarch 13:20240311-6.el10 appstream 239 k texlive-pst-node noarch 13:20240311-6.el10 appstream 729 k texlive-pst-plot noarch 13:20240311-6.el10 appstream 1.3 M texlive-pst-text noarch 13:20240311-6.el10 appstream 183 k texlive-pst-tools noarch 13:20240311-6.el10 appstream 123 k texlive-pst-tree noarch 13:20240311-6.el10 appstream 218 k texlive-pstricks noarch 13:20240311-6.el10 appstream 7.3 M texlive-pstricks-add noarch 13:20240311-6.el10 appstream 11 M texlive-pxfonts noarch 13:20240311-6.el10 appstream 941 k texlive-ragged2e noarch 13:20240311-6.el10 appstream 722 k texlive-rcs noarch 13:20240311-6.el10 appstream 143 k texlive-realscripts noarch 13:20240311-6.el10 appstream 115 k texlive-refcount noarch 13:20240311-6.el10 appstream 329 k texlive-rerunfilecheck noarch 13:20240311-6.el10 appstream 335 k texlive-rsfs noarch 13:20240311-6.el10 appstream 75 k texlive-sansmath noarch 13:20240311-6.el10 appstream 191 k texlive-sansmathaccent noarch 13:20240311-6.el10 appstream 181 k texlive-sauerj noarch 13:20240311-6.el10 appstream 548 k texlive-scheme-basic noarch 13:20240311-6.el10 appstream 6.9 k texlive-section noarch 13:20240311-6.el10 appstream 365 k texlive-seminar noarch 13:20240311-6.el10 appstream 382 k texlive-sepnum noarch 13:20240311-6.el10 appstream 357 k texlive-setspace noarch 13:20240311-6.el10 appstream 210 k texlive-showexpl noarch 13:20240311-6.el10 appstream 602 k texlive-stringenc noarch 13:20240311-6.el10 appstream 695 k texlive-subfig noarch 13:20240311-6.el10 appstream 465 k texlive-symbol noarch 13:20240311-6.el10 appstream 51 k texlive-tex x86_64 13:20240311-6.el10 appstream 206 k texlive-tex-gyre noarch 13:20240311-6.el10 appstream 19 M texlive-tex-gyre-math noarch 13:20240311-6.el10 appstream 1.8 M texlive-tex-ini-files noarch 13:20240311-6.el10 appstream 20 k texlive-texlive-common-doc noarch 13:20240311-6.el10 appstream 600 k texlive-texlive-en noarch 13:20240311-6.el10 appstream 1.9 M texlive-texlive-msg-translations noarch 13:20240311-6.el10 appstream 163 k texlive-texlive-scripts noarch 13:20240311-6.el10 appstream 122 k texlive-texlive-scripts-extra noarch 13:20240311-6.el10 appstream 65 k texlive-texlive.infra noarch 13:20240311-6.el10 appstream 297 k texlive-textcase noarch 13:20240311-6.el10 appstream 232 k texlive-thumbpdf noarch 13:20240311-6.el10 appstream 40 k texlive-tipa noarch 13:20240311-6.el10 appstream 5.1 M texlive-titlesec noarch 13:20240311-6.el10 appstream 693 k texlive-tools noarch 13:20240311-6.el10 appstream 6.1 M texlive-translator noarch 13:20240311-6.el10 appstream 289 k texlive-txfonts noarch 13:20240311-6.el10 appstream 1.4 M texlive-typehtml noarch 13:20240311-6.el10 appstream 169 k texlive-ucharcat noarch 13:20240311-6.el10 appstream 167 k texlive-ucs noarch 13:20240311-6.el10 appstream 1.7 M texlive-underscore noarch 13:20240311-6.el10 appstream 254 k texlive-unicode-data noarch 13:20240311-6.el10 appstream 360 k texlive-unicode-math noarch 13:20240311-6.el10 appstream 3.2 M texlive-uniquecounter noarch 13:20240311-6.el10 appstream 295 k texlive-url noarch 13:20240311-6.el10 appstream 275 k texlive-utopia noarch 13:20240311-6.el10 appstream 244 k texlive-varwidth noarch 13:20240311-6.el10 appstream 41 k texlive-wasy noarch 13:20240311-6.el10 appstream 338 k texlive-wasy-type1 noarch 13:20240311-6.el10 appstream 269 k texlive-wasysym noarch 13:20240311-6.el10 appstream 174 k texlive-xcolor noarch 13:20240311-6.el10 appstream 934 k texlive-xetex x86_64 13:20240311-6.el10 appstream 1.9 M texlive-xetexconfig noarch 13:20240311-6.el10 appstream 12 k texlive-xfrac noarch 13:20240311-6.el10 appstream 636 k texlive-xifthen noarch 13:20240311-6.el10 appstream 482 k texlive-xkeyval noarch 13:20240311-6.el10 appstream 443 k texlive-xltxtra noarch 13:20240311-6.el10 appstream 112 k texlive-xunicode noarch 13:20240311-6.el10 appstream 39 k texlive-zapfchan noarch 13:20240311-6.el10 appstream 105 k texlive-zapfding noarch 13:20240311-6.el10 appstream 60 k texlive-zref noarch 13:20240311-6.el10 appstream 680 k tk x86_64 1:8.6.13-5.el10 appstream 1.6 M tre x86_64 0.8.0-47.20140228gitc2f5d13.el10 copr_base 44 k tre-common noarch 0.8.0-47.20140228gitc2f5d13.el10 copr_base 31 k ttmkfdir x86_64 3.0.9-72.el10 appstream 57 k tzdata noarch 2026e-1.el10 baseos 908 k tzdata-java noarch 2026e-1.el10 appstream 45 k urw-base35-bookman-fonts noarch 20200910-21.el10 appstream 847 k urw-base35-c059-fonts noarch 20200910-21.el10 appstream 875 k urw-base35-d050000l-fonts noarch 20200910-21.el10 appstream 76 k urw-base35-fonts noarch 20200910-21.el10 appstream 11 k urw-base35-fonts-common noarch 20200910-21.el10 appstream 21 k urw-base35-gothic-fonts noarch 20200910-21.el10 appstream 643 k urw-base35-nimbus-mono-ps-fonts noarch 20200910-21.el10 appstream 795 k urw-base35-nimbus-roman-fonts noarch 20200910-21.el10 appstream 856 k urw-base35-nimbus-sans-fonts noarch 20200910-21.el10 appstream 1.3 M urw-base35-p052-fonts noarch 20200910-21.el10 appstream 974 k urw-base35-standard-symbols-ps-fonts noarch 20200910-21.el10 appstream 42 k urw-base35-z003-fonts noarch 20200910-21.el10 appstream 276 k xml-common noarch 0.6.3-65.el10 appstream 32 k xorg-x11-fonts-Type1 noarch 7.5-40.el10 appstream 505 k xorg-x11-proto-devel noarch 2024.1-3.el10 appstream 311 k zziplib x86_64 0.13.78-2.el10 appstream 91 k Transaction Summary ================================================================================================= Install 581 Packages Total download size: 603 M Installed size: 1.4 G Downloading Packages: (1/581): libdeflate-devel-1.26-1.el10.x86_64.rp 24 kB/s | 16 kB 00:00 (2/581): tre-0.8.0-47.20140228gitc2f5d13.el10.x 63 kB/s | 44 kB 00:00 (3/581): libdeflate-1.26-1.el10.x86_64.rpm 80 kB/s | 64 kB 00:00 (4/581): tre-common-0.8.0-47.20140228gitc2f5d13 92 kB/s | 31 kB 00:00 (5/581): avahi-libs-0.9~rc2-7.el10.x86_64.rpm 305 kB/s | 67 kB 00:00 (6/581): tre-devel-0.8.0-47.20140228gitc2f5d13. 34 kB/s | 12 kB 00:00 (7/581): cups-filesystem-2.4.10-18.el10.noarch. 77 kB/s | 11 kB 00:00 (8/581): cups-libs-2.4.10-18.el10.x86_64.rpm 1.9 MB/s | 260 kB 00:00 (9/581): default-fonts-core-sans-4.1-3.el10.noa 450 kB/s | 30 kB 00:00 (10/581): emacs-filesystem-29.4-13.el10.noarch. 126 kB/s | 8.3 kB 00:00 (11/581): fonts-filesystem-2.0.5-18.el10.noarch 135 kB/s | 8.8 kB 00:00 (12/581): dbus-libs-1.14.10-6.el10.x86_64.rpm 582 kB/s | 155 kB 00:00 (13/581): expat-2.7.3-4.el10.x86_64.rpm 940 kB/s | 121 kB 00:00 (14/581): gettext-envsubst-0.22.5-6.el10.x86_64 654 kB/s | 38 kB 00:00 (15/581): freetype-2.13.2-8.el10.x86_64.rpm 3.3 MB/s | 409 kB 00:00 (16/581): gettext-runtime-0.22.5-6.el10.x86_64. 2.1 MB/s | 122 kB 00:00 (17/581): gettext-0.22.5-6.el10.x86_64.rpm 4.6 MB/s | 1.1 MB 00:00 (18/581): gettext-libs-0.22.5-6.el10.x86_64.rpm 2.9 MB/s | 669 kB 00:00 (19/581): glib2-2.80.4-22.el10.x86_64.rpm 18 MB/s | 3.0 MB 00:00 (20/581): gnutls-3.8.10-5.el10.x86_64.rpm 13 MB/s | 1.5 MB 00:00 (21/581): google-noto-fonts-common-20240401-5.e 291 kB/s | 18 kB 00:00 (22/581): google-noto-sans-vf-fonts-20240401-5. 9.3 MB/s | 594 kB 00:00 (23/581): graphite2-1.3.14-17.el10.x86_64.rpm 1.5 MB/s | 96 kB 00:00 (24/581): harfbuzz-8.4.0-6.el10.x86_64.rpm 14 MB/s | 992 kB 00:00 (25/581): less-661-3.el10.x86_64.rpm 2.9 MB/s | 191 kB 00:00 (26/581): groff-base-1.23.0-10.el10.x86_64.rpm 8.8 MB/s | 1.1 MB 00:00 (27/581): libgfortran-14.4.1-4.el10.x86_64.rpm 9.3 MB/s | 813 kB 00:00 (28/581): libkadm5-1.21.3-11.el10.x86_64.rpm 865 kB/s | 76 kB 00:00 (29/581): libpng-1.6.40-13.el10.x86_64.rpm 1.7 MB/s | 120 kB 00:00 (30/581): libquadmath-14.4.1-4.el10.x86_64.rpm 2.8 MB/s | 201 kB 00:00 (31/581): libtirpc-1.3.5-1.el10.x86_64.rpm 1.3 MB/s | 95 kB 00:00 (32/581): libicu-74.2-5.el10.x86_64.rpm 48 MB/s | 10 MB 00:00 (33/581): lksctp-tools-1.0.21-1.el10.x86_64.rpm 1.4 MB/s | 94 kB 00:00 (34/581): mailcap-2.1.54-8.el10.noarch.rpm 533 kB/s | 35 kB 00:00 (35/581): make-4.4.1-9.el10.x86_64.rpm 8.0 MB/s | 587 kB 00:00 (36/581): mpdecimal-2.5.1-12.el10.x86_64.rpm 1.2 MB/s | 90 kB 00:00 (37/581): ncurses-6.4-15.20240127.el10.x86_64.r 5.5 MB/s | 420 kB 00:00 (38/581): perl-Carp-1.54-511.el10.noarch.rpm 422 kB/s | 30 kB 00:00 (39/581): perl-Data-Dumper-2.189-512.el10.x86_6 832 kB/s | 57 kB 00:00 (40/581): perl-Digest-1.20-511.el10.noarch.rpm 377 kB/s | 26 kB 00:00 (41/581): perl-Digest-MD5-2.59-6.el10.x86_64.rp 550 kB/s | 37 kB 00:00 (42/581): perl-Encode-3.21-511.el10.x86_64.rpm 15 MB/s | 1.1 MB 00:00 (43/581): perl-Exporter-5.78-511.el10.noarch.rp 498 kB/s | 32 kB 00:00 (44/581): perl-File-Temp-0.231.100-512.el10.noa 937 kB/s | 60 kB 00:00 (45/581): perl-Getopt-Long-2.58-3.el10.noarch.r 972 kB/s | 65 kB 00:00 (46/581): perl-HTTP-Tiny-0.088-512.el10.noarch. 862 kB/s | 57 kB 00:00 (47/581): perl-IO-Socket-IP-0.42-512.el10.noarc 620 kB/s | 43 kB 00:00 (48/581): perl-IO-Socket-SSL-2.085-3.el10.noarc 3.2 MB/s | 227 kB 00:00 (49/581): perl-MIME-Base64-3.16-511.el10.x86_64 430 kB/s | 31 kB 00:00 (50/581): perl-Mozilla-CA-20231213-5.el10.noarc 211 kB/s | 15 kB 00:00 (51/581): perl-PathTools-3.91-512.el10.x86_64.r 1.2 MB/s | 85 kB 00:00 (52/581): perl-Pod-Escapes-1.07-511.el10.noarch 284 kB/s | 21 kB 00:00 (53/581): perl-Pod-Perldoc-3.28.01-512.el10.noa 1.1 MB/s | 84 kB 00:00 (54/581): perl-Pod-Simple-3.45-511.el10.noarch. 2.9 MB/s | 218 kB 00:00 (55/581): perl-Pod-Usage-2.03-511.el10.noarch.r 554 kB/s | 41 kB 00:00 (56/581): perl-Scalar-List-Utils-1.63-511.el10. 1.0 MB/s | 74 kB 00:00 (57/581): perl-Socket-2.038-511.el10.x86_64.rpm 767 kB/s | 56 kB 00:00 (58/581): perl-Storable-3.32-511.el10.x86_64.rp 1.3 MB/s | 99 kB 00:00 (59/581): perl-Term-ANSIColor-5.01-512.el10.noa 645 kB/s | 49 kB 00:00 (60/581): perl-Term-Cap-1.18-511.el10.noarch.rp 309 kB/s | 23 kB 00:00 (61/581): perl-Text-ParseWords-3.31-511.el10.no 231 kB/s | 17 kB 00:00 (62/581): perl-Text-Tabs+Wrap-2024.001-511.el10 303 kB/s | 23 kB 00:00 (63/581): perl-Time-Local-1.350-511.el10.noarch 505 kB/s | 35 kB 00:00 (64/581): perl-constant-1.33-512.el10.noarch.rp 351 kB/s | 24 kB 00:00 (65/581): perl-libnet-3.15-512.el10.noarch.rpm 1.8 MB/s | 127 kB 00:00 (66/581): perl-parent-0.241-512.el10.noarch.rpm 229 kB/s | 16 kB 00:00 (67/581): perl-podlators-5.01-511.el10.noarch.r 1.8 MB/s | 124 kB 00:00 (68/581): python3-3.12.15-1.el10.x86_64.rpm 402 kB/s | 27 kB 00:00 (69/581): python3-packaging-24.2-2.el10.noarch. 2.1 MB/s | 153 kB 00:00 (70/581): python3-pip-wheel-23.3.2-11.el10.noar 20 MB/s | 1.5 MB 00:00 (71/581): python3-libs-3.12.15-1.el10.x86_64.rp 62 MB/s | 9.5 MB 00:00 (72/581): redhat-text-vf-fonts-4.1.0-1.el10.noa 5.2 MB/s | 354 kB 00:00 (73/581): tcl-8.6.13-4.el10.x86_64.rpm 16 MB/s | 1.1 MB 00:00 (74/581): tzdata-2026e-1.el10.noarch.rpm 14 MB/s | 908 kB 00:00 (75/581): adobe-mappings-cmap-deprecated-202306 125 kB/s | 115 kB 00:00 (76/581): adobe-mappings-pdf-20190401-9.el10.no 622 kB/s | 687 kB 00:01 (77/581): annobin-docs-13.31-1.el10.noarch.rpm 742 kB/s | 86 kB 00:00 (78/581): alsa-lib-1.2.16.1-1.el10.x86_64.rpm 1.3 MB/s | 547 kB 00:00 (79/581): adobe-mappings-cmap-20230622-5.el10.n 1.5 MB/s | 2.1 MB 00:01 (80/581): annobin-plugin-gcc-13.31-1.el10.x86_6 3.1 MB/s | 704 kB 00:00 (81/581): automake-1.16.5-20.el10.noarch.rpm 5.0 MB/s | 702 kB 00:00 (82/581): autoconf-2.71-13.el10.noarch.rpm 2.8 MB/s | 736 kB 00:00 (83/581): brotli-1.1.0-8.el10.x86_64.rpm 140 kB/s | 19 kB 00:00 (84/581): brotli-devel-1.1.0-8.el10.x86_64.rpm 216 kB/s | 33 kB 00:00 (85/581): cairo-1.18.2-3.el10.x86_64.rpm 4.6 MB/s | 715 kB 00:00 (86/581): bzip2-devel-1.0.8-25.el10.x86_64.rpm 1.1 MB/s | 215 kB 00:00 (87/581): cairo-devel-1.18.2-3.el10.x86_64.rpm 1.2 MB/s | 194 kB 00:00 (88/581): cmake-filesystem-3.31.8-1.el10.x86_64 121 kB/s | 21 kB 00:00 (89/581): flexiblas-3.4.2-3.el10.x86_64.rpm 157 kB/s | 26 kB 00:00 (90/581): flexiblas-devel-3.4.2-3.el10.x86_64.r 805 kB/s | 122 kB 00:00 (91/581): flexiblas-netlib-3.4.2-3.el10.x86_64. 9.6 MB/s | 3.2 MB 00:00 (92/581): flexiblas-netlib64-3.4.2-3.el10.x86_6 6.9 MB/s | 3.1 MB 00:00 (93/581): flexiblas-openblas-openmp-3.4.2-3.el1 106 kB/s | 18 kB 00:00 (94/581): flexiblas-openblas-openmp64-3.4.2-3.e 124 kB/s | 18 kB 00:00 (95/581): fontconfig-2.15.0-7.el10.x86_64.rpm 1.5 MB/s | 280 kB 00:00 (96/581): fontconfig-devel-2.15.0-7.el10.x86_64 1.1 MB/s | 175 kB 00:00 (97/581): freetype-devel-2.13.2-8.el10.x86_64.r 5.6 MB/s | 966 kB 00:00 (98/581): fribidi-1.0.14-4.el10.x86_64.rpm 631 kB/s | 93 kB 00:00 (99/581): cpp-14.4.1-4.el10.x86_64.rpm 10 MB/s | 13 MB 00:01 (100/581): fribidi-devel-1.0.14-4.el10.x86_64.r 178 kB/s | 28 kB 00:00 (101/581): gcc-gfortran-14.4.1-4.el10.x86_64.rp 16 MB/s | 14 MB 00:00 (102/581): gcc-plugin-annobin-14.4.1-4.el10.x86 316 kB/s | 54 kB 00:00 (103/581): ghostscript-10.02.1-17.el10.x86_64.r 239 kB/s | 34 kB 00:00 (104/581): gcc-c++-14.4.1-4.el10.x86_64.rpm 11 MB/s | 15 MB 00:01 (105/581): ghostscript-tools-fonts-10.02.1-17.e 69 kB/s | 11 kB 00:00 (106/581): ghostscript-tools-printing-10.02.1-1 67 kB/s | 11 kB 00:00 (107/581): glib2-devel-2.80.4-22.el10.x86_64.rp 7.4 MB/s | 1.5 MB 00:00 (108/581): glibc-devel-2.39-147.el10.x86_64.rpm 3.4 MB/s | 584 kB 00:00 (109/581): google-droid-sans-fonts-20200215-22. 14 MB/s | 2.7 MB 00:00 (110/581): graphite2-devel-1.3.14-17.el10.x86_6 136 kB/s | 22 kB 00:00 (111/581): harfbuzz-cairo-8.4.0-6.el10.x86_64.r 193 kB/s | 28 kB 00:00 (112/581): harfbuzz-devel-8.4.0-6.el10.x86_64.r 2.6 MB/s | 453 kB 00:00 (113/581): harfbuzz-icu-8.4.0-6.el10.x86_64.rpm 100 kB/s | 15 kB 00:00 (114/581): java-21-openjdk-21.0.12.1.1-2.1.el10 2.2 MB/s | 403 kB 00:00 (115/581): java-21-openjdk-devel-21.0.12.1.1-2. 16 MB/s | 5.0 MB 00:00 (116/581): javapackages-filesystem-6.4.0-1.el10 91 kB/s | 15 kB 00:00 (117/581): gcc-14.4.1-4.el10.x86_64.rpm 14 MB/s | 38 MB 00:02 (118/581): jbig2dec-libs-0.20-7.el10.x86_64.rpm 495 kB/s | 76 kB 00:00 (119/581): jbigkit-libs-2.1-31.el10.x86_64.rpm 332 kB/s | 54 kB 00:00 (120/581): kernel-headers-6.12.0-279.el10.x86_6 11 MB/s | 2.3 MB 00:00 (121/581): keyutils-libs-devel-1.6.3-5.el10.x86 370 kB/s | 61 kB 00:00 (122/581): krb5-devel-1.21.3-11.el10.x86_64.rpm 880 kB/s | 143 kB 00:00 (123/581): lcms2-2.16-6.el10.x86_64.rpm 1.1 MB/s | 182 kB 00:00 (124/581): libICE-1.1.1-5.el10.x86_64.rpm 479 kB/s | 75 kB 00:00 (125/581): libICE-devel-1.1.1-5.el10.x86_64.rpm 301 kB/s | 47 kB 00:00 (126/581): libSM-1.2.4-5.el10.x86_64.rpm 270 kB/s | 44 kB 00:00 (127/581): libSM-devel-1.2.4-5.el10.x86_64.rpm 76 kB/s | 13 kB 00:00 (128/581): libX11-1.8.13-1.el10.x86_64.rpm 3.6 MB/s | 651 kB 00:00 (129/581): libX11-common-1.8.13-1.el10.noarch.r 1.3 MB/s | 198 kB 00:00 (130/581): libX11-devel-1.8.13-1.el10.x86_64.rp 6.5 MB/s | 1.1 MB 00:00 (131/581): libX11-xcb-1.8.13-1.el10.x86_64.rpm 75 kB/s | 11 kB 00:00 (132/581): libXau-1.0.11-8.el10.x86_64.rpm 230 kB/s | 33 kB 00:00 (133/581): libXau-devel-1.0.11-8.el10.x86_64.rp 102 kB/s | 15 kB 00:00 (134/581): libXcomposite-0.4.6-5.el10.x86_64.rp 172 kB/s | 25 kB 00:00 (135/581): libXext-1.3.6-3.el10.x86_64.rpm 238 kB/s | 40 kB 00:00 (136/581): libXext-devel-1.3.6-3.el10.x86_64.rp 593 kB/s | 87 kB 00:00 (137/581): libXft-2.3.8-8.el10.x86_64.rpm 515 kB/s | 73 kB 00:00 (138/581): libXft-devel-2.3.8-8.el10.x86_64.rpm 312 kB/s | 52 kB 00:00 (139/581): libXi-1.8.1-7.el10.x86_64.rpm 255 kB/s | 41 kB 00:00 (140/581): libXmu-1.1.4-8.el10.x86_64.rpm 501 kB/s | 77 kB 00:00 (141/581): libXmu-devel-1.1.4-8.el10.x86_64.rpm 169 kB/s | 26 kB 00:00 (142/581): libXrender-0.9.11-8.el10.x86_64.rpm 156 kB/s | 29 kB 00:00 (143/581): libXrender-devel-0.9.11-8.el10.x86_6 112 kB/s | 20 kB 00:00 (144/581): libXt-1.3.0-5.el10.x86_64.rpm 1.2 MB/s | 181 kB 00:00 (145/581): libXt-devel-1.3.0-5.el10.x86_64.rpm 3.1 MB/s | 477 kB 00:00 (146/581): libXtst-1.2.4-8.el10.x86_64.rpm 143 kB/s | 22 kB 00:00 (147/581): libblkid-devel-2.40.2-23.el10.x86_64 167 kB/s | 25 kB 00:00 (148/581): libcom_err-devel-1.47.1-5.el10.x86_6 104 kB/s | 16 kB 00:00 (149/581): libcurl-devel-8.12.1-8.el10.x86_64.r 5.8 MB/s | 946 kB 00:00 (150/581): libdatrie-0.2.13-11.el10.x86_64.rpm 219 kB/s | 33 kB 00:00 (151/581): libdatrie-devel-0.2.13-11.el10.x86_6 987 kB/s | 159 kB 00:00 (152/581): 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perl-IO-Socket-SSL-2.085-3.el10.noarch 175/581 Installing : perl-Net-SSLeay-1.94-9.el10.x86_64 176/581 Installing : perl-Term-ANSIColor-5.01-512.el10.noarch 177/581 Installing : perl-Class-Struct-0.68-515.el10.noarch 178/581 Installing : perl-POSIX-2.20-515.el10.x86_64 179/581 Installing : perl-IPC-Open3-1.22-515.el10.noarch 180/581 Installing : perl-Term-Cap-1.18-511.el10.noarch 181/581 Installing : perl-File-Temp-1:0.231.100-512.el10.noarch 182/581 Installing : perl-HTTP-Tiny-0.088-512.el10.noarch 183/581 Installing : perl-Pod-Simple-1:3.45-511.el10.noarch 184/581 Installing : perl-Socket-4:2.038-511.el10.x86_64 185/581 Installing : perl-SelectSaver-1.02-515.el10.noarch 186/581 Installing : perl-Symbol-1.09-515.el10.noarch 187/581 Installing : perl-File-stat-1.14-515.el10.noarch 188/581 Installing : perl-podlators-1:5.01-511.el10.noarch 189/581 Installing : perl-Pod-Perldoc-3.28.01-512.el10.noarch 190/581 Installing : perl-Text-ParseWords-3.31-511.el10.noarch 191/581 Installing : perl-Fcntl-1.18-515.el10.x86_64 192/581 Installing : perl-base-2.27-515.el10.noarch 193/581 Installing : perl-mro-1.29-515.el10.x86_64 194/581 Installing : perl-IO-1.55-515.el10.x86_64 195/581 Installing : perl-overloading-0.02-515.el10.noarch 196/581 Installing : perl-Pod-Usage-4:2.03-511.el10.noarch 197/581 Installing : perl-MIME-Base64-3.16-511.el10.x86_64 198/581 Installing : perl-Scalar-List-Utils-5:1.63-511.el10.x86_64 199/581 Installing : perl-constant-1.33-512.el10.noarch 200/581 Installing : perl-parent-1:0.241-512.el10.noarch 201/581 Installing : perl-Errno-1.38-515.el10.x86_64 202/581 Installing : perl-File-Basename-2.86-515.el10.noarch 203/581 Installing : perl-Getopt-Std-1.14-515.el10.noarch 204/581 Installing : perl-Storable-1:3.32-511.el10.x86_64 205/581 Installing : perl-overload-1.37-515.el10.noarch 206/581 Installing : perl-vars-1.05-515.el10.noarch 207/581 Installing : perl-Getopt-Long-1:2.58-3.el10.noarch 208/581 Installing : perl-Carp-1.54-511.el10.noarch 209/581 Installing : perl-Exporter-5.78-511.el10.noarch 210/581 Installing : perl-PathTools-3.91-512.el10.x86_64 211/581 Installing : perl-DynaLoader-1.56-515.el10.x86_64 212/581 Installing : perl-Encode-4:3.21-511.el10.x86_64 213/581 Installing : perl-libs-4:5.40.2-515.el10.x86_64 214/581 Installing : perl-interpreter-4:5.40.2-515.el10.x86_64 215/581 Installing : perl-Compress-Raw-Zlib-2.212-513.el10.x86_64 216/581 Installing : perl-File-Copy-2.41-515.el10.noarch 217/581 Installing : perl-File-Find-1.44-515.el10.noarch 218/581 Installing : perl-I18N-Langinfo-0.24-515.el10.x86_64 219/581 Installing : perl-Encode-Locale-1.05-31.el10.noarch 220/581 Installing : perl-LWP-MediaTypes-6.04-19.el10.noarch 221/581 Installing : perl-Text-Unidecode-1.30-27.el10.noarch 222/581 Installing : perl-threads-1:2.40-511.el10.x86_64 223/581 Installing : perl-threads-shared-1.69-511.el10.x86_64 224/581 Installing : perl-Thread-Queue-3.14-511.el10.noarch 225/581 Installing : perl-libintl-perl-1.33-11.el10.x86_64 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perl-HTML-Parser-3.82-3.el10.x86_64 244/581 Installing : perl-HTTP-Cookies-6.11-5.el10.noarch 245/581 Installing : perl-HTTP-Negotiate-6.01-40.el10.noarch 246/581 Installing : perl-File-Listing-6.16-5.el10.noarch 247/581 Installing : perl-Try-Tiny-0.31-12.el10.noarch 248/581 Installing : perl-WWW-RobotRules-6.02-41.el10.noarch 249/581 Installing : perl-subs-1.04-515.el10.noarch 250/581 Installing : perl-Data-Dump-1.25-13.el10.noarch 251/581 Installing : perl-libwww-perl-6.76-3.el10.noarch 252/581 Installing : perl-XML-Parser-2.47-7.el10.x86_64 253/581 Installing : perl-XML-XPath-1.48-8.el10.noarch 254/581 Installing : texlive-texlive.infra-13:20240311-6.el10.noarch 255/581 Installing : texlive-texlive-scripts-13:20240311-6.el10.noarc 256/581 Installing : texlive-kpathsea-13:20240311-6.el10.x86_64 257/581 Installing : texlive-iftex-13:20240311-6.el10.noarch 258/581 Installing : texlive-amsmath-13:20240311-6.el10.noarch 259/581 Installing : texlive-amsfonts-13:20240311-6.el10.noarch 260/581 Installing : texlive-cm-13:20240311-6.el10.noarch 261/581 Installing : texlive-hyphen-base-13:20240311-6.el10.noarch 262/581 Installing : texlive-kvoptions-13:20240311-6.el10.noarch 263/581 Installing : texlive-ltxcmds-13:20240311-6.el10.noarch 264/581 Installing : texlive-plain-13:20240311-6.el10.noarch 265/581 Installing : texlive-url-13:20240311-6.el10.noarch 266/581 Installing : texlive-atbegshi-13:20240311-6.el10.noarch 267/581 Installing : texlive-booktabs-13:20240311-6.el10.noarch 268/581 Installing : texlive-etex-13:20240311-6.el10.noarch 269/581 Installing : texlive-etex-pkg-13:20240311-6.el10.noarch 270/581 Installing : texlive-etoolbox-13:20240311-6.el10.noarch 271/581 Installing : texlive-knuth-lib-13:20240311-6.el10.noarch 272/581 Installing : texlive-tex-ini-files-13:20240311-6.el10.noarch 273/581 Installing : texlive-unicode-data-13:20240311-6.el10.noarch 274/581 Installing : texlive-auxhook-13:20240311-6.el10.noarch 275/581 Installing : texlive-babel-13:20240311-6.el10.noarch 276/581 Installing : texlive-etexcmds-13:20240311-6.el10.noarch 277/581 Installing : texlive-infwarerr-13:20240311-6.el10.noarch 278/581 Installing : texlive-latex-fonts-13:20240311-6.el10.noarch 279/581 Installing : texlive-lm-13:20240311-6.el10.noarch 280/581 Installing : texlive-luatexbase-13:20240311-6.el10.noarch 281/581 Installing : texlive-atveryend-13:20240311-6.el10.noarch 282/581 Installing : texlive-fp-13:20240311-6.el10.noarch 283/581 Installing : texlive-hologo-13:20240311-6.el10.noarch 284/581 Installing : texlive-hypdoc-13:20240311-6.el10.noarch 285/581 Installing : texlive-hyph-utf8-13:20240311-6.el10.noarch 286/581 Installing : texlive-intcalc-13:20240311-6.el10.noarch 287/581 Installing : texlive-kvsetkeys-13:20240311-6.el10.noarch 288/581 Installing : texlive-letltxmacro-13:20240311-6.el10.noarch 289/581 Installing : texlive-multido-13:20240311-6.el10.noarch 290/581 Installing : texlive-natbib-13:20240311-6.el10.noarch 291/581 Installing : texlive-pdfescape-13:20240311-6.el10.noarch 292/581 Installing : texlive-pdftexcmds-13:20240311-6.el10.noarch 293/581 Installing : texlive-ragged2e-13:20240311-6.el10.noarch 294/581 Installing : texlive-setspace-13:20240311-6.el10.noarch 295/581 Installing : texlive-uniquecounter-13:20240311-6.el10.noarch 296/581 Installing : texlive-zapfding-13:20240311-6.el10.noarch 297/581 Installing : texlive-rerunfilecheck-13:20240311-6.el10.noarch 298/581 Installing : texlive-catchfile-13:20240311-6.el10.noarch 299/581 Installing : texlive-babelbib-13:20240311-6.el10.noarch 300/581 Installing : texlive-memoir-13:20240311-6.el10.noarch 301/581 Installing : texlive-bigintcalc-13:20240311-6.el10.noarch 302/581 Installing : texlive-bitset-13:20240311-6.el10.noarch 303/581 Installing : texlive-bookmark-13:20240311-6.el10.noarch 304/581 Installing : texlive-ec-13:20240311-6.el10.noarch 305/581 Installing : texlive-epstopdf-pkg-13:20240311-6.el10.noarch 306/581 Installing : texlive-graphics-def-13:20240311-6.el10.noarch 307/581 Installing : texlive-luatex-13:20240311-6.el10.x86_64 308/581 Installing : texlive-pdftex-13:20240311-6.el10.x86_64 309/581 Installing : texlive-euler-13:20240311-6.el10.noarch 310/581 Installing : texlive-everyshi-13:20240311-6.el10.noarch 311/581 Installing : texlive-count1to-13:20240311-6.el10.noarch 312/581 Installing : texlive-fancyhdr-13:20240311-6.el10.noarch 313/581 Installing : texlive-float-13:20240311-6.el10.noarch 314/581 Installing : texlive-gettitlestring-13:20240311-6.el10.noarch 315/581 Installing : texlive-glyphlist-13:20240311-6.el10.noarch 316/581 Installing : texlive-graphics-cfg-13:20240311-6.el10.noarch 317/581 Installing : texlive-graphics-13:20240311-6.el10.noarch 318/581 Installing : texlive-tools-13:20240311-6.el10.noarch 319/581 Installing : texlive-xkeyval-13:20240311-6.el10.noarch 320/581 Installing : texlive-geometry-13:20240311-6.el10.noarch 321/581 Installing : 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texlive-marvosym-13:20240311-6.el10.noarch 337/581 Installing : texlive-paralist-13:20240311-6.el10.noarch 338/581 Installing : texlive-pdflscape-13:20240311-6.el10.noarch 339/581 Installing : texlive-placeins-13:20240311-6.el10.noarch 340/581 Installing : texlive-refcount-13:20240311-6.el10.noarch 341/581 Installing : texlive-stringenc-13:20240311-6.el10.noarch 342/581 Installing : texlive-symbol-13:20240311-6.el10.noarch 343/581 Installing : texlive-psnfss-13:20240311-6.el10.noarch 344/581 Installing : texlive-underscore-13:20240311-6.el10.noarch 345/581 Installing : texlive-wasy-13:20240311-6.el10.noarch 346/581 Installing : texlive-zref-13:20240311-6.el10.noarch 347/581 Installing : texlive-wasy-type1-13:20240311-6.el10.noarch 348/581 Installing : texlive-breakurl-13:20240311-6.el10.noarch 349/581 Installing : texlive-ctable-13:20240311-6.el10.noarch 350/581 Installing : texlive-fancyref-13:20240311-6.el10.noarch 351/581 Installing : texlive-ltabptch-13:20240311-6.el10.noarch 352/581 Installing : texlive-mathtools-13:20240311-6.el10.noarch 353/581 Installing : texlive-crop-13:20240311-6.el10.noarch 354/581 Installing : texlive-csquotes-13:20240311-6.el10.noarch 355/581 Installing : texlive-microtype-13:20240311-6.el10.noarch 356/581 Installing : texlive-pdfmanagement-testphase-13:20240311-6.el 357/581 Installing : texlive-psfrag-13:20240311-6.el10.noarch 358/581 Installing : texlive-lua-uni-algos-13:20240311-6.el10.noarch 359/581 Installing : texlive-luahbtex-13:20240311-6.el10.x86_64 360/581 Installing : texlive-ifplatform-13:20240311-6.el10.noarch 361/581 Installing : texlive-euro-13:20240311-6.el10.noarch 362/581 Installing : texlive-dvips-13:20240311-6.el10.x86_64 363/581 Installing : texlive-tex-13:20240311-6.el10.x86_64 364/581 Installing : texlive-hopatch-13:20240311-6.el10.noarch 365/581 Installing : texlive-tex-gyre-13:20240311-6.el10.noarch 366/581 Installing : texlive-alphalph-13:20240311-6.el10.noarch 367/581 Installing : texlive-anysize-13:20240311-6.el10.noarch 368/581 Installing : texlive-attachfile2-13:20240311-6.el10.noarch 369/581 Installing : texlive-avantgar-13:20240311-6.el10.noarch 370/581 Installing : texlive-babel-english-13:20240311-6.el10.noarch 371/581 Installing : texlive-beton-13:20240311-6.el10.noarch 372/581 Installing : texlive-bibtex-13:20240311-6.el10.x86_64 373/581 Installing : texlive-bookman-13:20240311-6.el10.noarch 374/581 Installing : texlive-changepage-13:20240311-6.el10.noarch 375/581 Installing : texlive-charter-13:20240311-6.el10.noarch 376/581 Installing : texlive-chngcntr-13:20240311-6.el10.noarch 377/581 Installing : texlive-cite-13:20240311-6.el10.noarch 378/581 Installing : texlive-cmap-13:20240311-6.el10.noarch 379/581 Installing : texlive-cmextra-13:20240311-6.el10.noarch 380/581 Installing : texlive-colorprofiles-13:20240311-6.el10.noarch 381/581 Installing : texlive-courier-13:20240311-6.el10.noarch 382/581 Installing : texlive-enctex-13:20240311-6.el10.noarch 383/581 Installing : texlive-enumitem-13:20240311-6.el10.noarch 384/581 Installing : texlive-epsf-13:20240311-6.el10.noarch 385/581 Installing : texlive-euenc-13:20240311-6.el10.noarch 386/581 Installing : texlive-eurosym-13:20240311-6.el10.noarch 387/581 Installing : texlive-everysel-13:20240311-6.el10.noarch 388/581 Installing : texlive-fancybox-13:20240311-6.el10.noarch 389/581 Installing : texlive-filecontents-13:20240311-6.el10.noarch 390/581 Installing : texlive-finstrut-13:20240311-6.el10.noarch 391/581 Installing : texlive-lineno-13:20240311-6.el10.noarch 392/581 Installing : texlive-firstaid-13:20240311-6.el10.noarch 393/581 Installing : texlive-fix2col-13:20240311-6.el10.noarch 394/581 Installing : texlive-footmisc-13:20240311-6.el10.noarch 395/581 Installing : texlive-footnotehyper-13:20240311-6.el10.noarch 396/581 Installing : texlive-fpl-13:20240311-6.el10.noarch 397/581 Installing : texlive-helvetic-13:20240311-6.el10.noarch 398/581 Installing : 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texlive-marginnote-13:20240311-6.el10.noarch 414/581 Installing : texlive-mathpazo-13:20240311-6.el10.noarch 415/581 Installing : texlive-mdwtools-13:20240311-6.el10.noarch 416/581 Installing : texlive-metafont-13:20240311-6.el10.x86_64 417/581 Installing : texlive-mflogo-13:20240311-6.el10.noarch 418/581 Installing : texlive-mflogo-font-13:20240311-6.el10.noarch 419/581 Installing : texlive-mfnfss-13:20240311-6.el10.noarch 420/581 Installing : texlive-mfware-13:20240311-6.el10.x86_64 421/581 Installing : texlive-modes-13:20240311-6.el10.noarch 422/581 Installing : texlive-mparhack-13:20240311-6.el10.noarch 423/581 Installing : texlive-mptopdf-13:20240311-6.el10.noarch 424/581 Installing : texlive-ncntrsbk-13:20240311-6.el10.noarch 425/581 Installing : texlive-newfloat-13:20240311-6.el10.noarch 426/581 Installing : texlive-notoccite-13:20240311-6.el10.noarch 427/581 Installing : texlive-ntgclass-13:20240311-6.el10.noarch 428/581 Installing : texlive-palatino-13:20240311-6.el10.noarch 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texlive-pxfonts-13:20240311-6.el10.noarch 445/581 Installing : texlive-rcs-13:20240311-6.el10.noarch 446/581 Installing : texlive-rsfs-13:20240311-6.el10.noarch 447/581 Installing : texlive-sansmath-13:20240311-6.el10.noarch 448/581 Installing : texlive-section-13:20240311-6.el10.noarch 449/581 Installing : texlive-sepnum-13:20240311-6.el10.noarch 450/581 Installing : texlive-tex-gyre-math-13:20240311-6.el10.noarch 451/581 Installing : texlive-texlive-en-13:20240311-6.el10.noarch 452/581 Installing : texlive-texlive-msg-translations-13:20240311-6.e 453/581 Installing : texlive-texlive-scripts-extra-13:20240311-6.el10 454/581 Installing : texlive-textcase-13:20240311-6.el10.noarch 455/581 Installing : texlive-times-13:20240311-6.el10.noarch 456/581 Installing : texlive-titlesec-13:20240311-6.el10.noarch 457/581 Installing : texlive-txfonts-13:20240311-6.el10.noarch 458/581 Installing : texlive-ucharcat-13:20240311-6.el10.noarch 459/581 Installing : texlive-utopia-13:20240311-6.el10.noarch 460/581 Installing : texlive-varwidth-13:20240311-6.el10.noarch 461/581 Installing : texlive-algorithms-13:20240311-6.el10.noarch 462/581 Installing : texlive-bera-13:20240311-6.el10.noarch 463/581 Installing : texlive-cm-super-13:20240311-6.el10.noarch 464/581 Installing : texlive-l3kernel-13:20240311-6.el10.noarch 465/581 Installing : texlive-latex-13:20240311-6.el10.noarch 466/581 Installing : texlive-koma-script-13:20240311-6.el10.noarch 467/581 Installing : texlive-listings-13:20240311-6.el10.noarch 468/581 Installing : texlive-showexpl-13:20240311-6.el10.noarch 469/581 Installing : texlive-fancyvrb-13:20240311-6.el10.noarch 470/581 Installing : texlive-pst-3d-13:20240311-6.el10.noarch 471/581 Installing : texlive-pst-coil-13:20240311-6.el10.noarch 472/581 Installing : texlive-pst-eps-13:20240311-6.el10.noarch 473/581 Installing : texlive-pst-fill-13:20240311-6.el10.noarch 474/581 Installing : texlive-pst-grad-13:20240311-6.el10.noarch 475/581 Installing : texlive-pst-node-13:20240311-6.el10.noarch 476/581 Installing : texlive-pst-plot-13:20240311-6.el10.noarch 477/581 Installing : texlive-pst-text-13:20240311-6.el10.noarch 478/581 Installing : texlive-pst-tools-13:20240311-6.el10.noarch 479/581 Installing : texlive-pst-tree-13:20240311-6.el10.noarch 480/581 Installing : texlive-pstricks-add-13:20240311-6.el10.noarch 481/581 Installing : texlive-pstricks-13:20240311-6.el10.noarch 482/581 Installing : texlive-l3packages-13:20240311-6.el10.noarch 483/581 Installing : texlive-amscls-13:20240311-6.el10.noarch 484/581 Installing : texlive-tipa-13:20240311-6.el10.noarch 485/581 Installing : texlive-xunicode-13:20240311-6.el10.noarch 486/581 Installing : texlive-fontspec-13:20240311-6.el10.noarch 487/581 Installing : texlive-metalogo-13:20240311-6.el10.noarch 488/581 Installing : texlive-realscripts-13:20240311-6.el10.noarch 489/581 Installing : texlive-xltxtra-13:20240311-6.el10.noarch 490/581 Installing : texlive-l3experimental-13:20240311-6.el10.noarch 491/581 Installing : texlive-seminar-13:20240311-6.el10.noarch 492/581 Installing : texlive-ae-13:20240311-6.el10.noarch 493/581 Installing : texlive-extsizes-13:20240311-6.el10.noarch 494/581 Installing : texlive-jknapltx-13:20240311-6.el10.noarch 495/581 Installing : texlive-minitoc-13:20240311-6.el10.noarch 496/581 Installing : texlive-ltxmisc-13:20240311-6.el10.noarch 497/581 Installing : texlive-mnsymbol-13:20240311-6.el10.noarch 498/581 Installing : texlive-mathspec-13:20240311-6.el10.noarch 499/581 Installing : texlive-multitoc-13:20240311-6.el10.noarch 500/581 Installing : texlive-pdfpages-13:20240311-6.el10.noarch 501/581 Installing : texlive-typehtml-13:20240311-6.el10.noarch 502/581 Installing : texlive-ucs-13:20240311-6.el10.noarch 503/581 Installing : texlive-beamer-13:20240311-6.el10.noarch 504/581 Installing : texlive-xifthen-13:20240311-6.el10.noarch 505/581 Installing : texlive-bidi-13:20240311-6.el10.noarch 506/581 Installing : texlive-polyglossia-13:20240311-6.el10.noarch 507/581 Installing : texlive-breqn-13:20240311-6.el10.noarch 508/581 Installing : texlive-lualatex-math-13:20240311-6.el10.noarch 509/581 Installing : texlive-unicode-math-13:20240311-6.el10.noarch 510/581 Installing : texlive-oberdiek-13:20240311-6.el10.noarch 511/581 Installing : texlive-wasysym-13:20240311-6.el10.noarch 512/581 Installing : texlive-xetexconfig-13:20240311-6.el10.noarch 513/581 Installing : texlive-xfrac-13:20240311-6.el10.noarch 514/581 Installing : texlive-zapfchan-13:20240311-6.el10.noarch 515/581 Installing : perl-Unicode-EastAsianWidth-12.0-16.el10.noarch 516/581 Installing : texinfo-7.1-6.el10.x86_64 517/581 Installing : google-noto-fonts-common-20240401-5.el10.noarch 518/581 Installing : google-noto-sans-vf-fonts-20240401-5.el10.noarch 519/581 Installing : default-fonts-core-sans-4.1-3.el10.noarch 520/581 Installing : fontconfig-2.15.0-7.el10.x86_64 521/581 Running scriptlet: fontconfig-2.15.0-7.el10.x86_64 521/581 Installing : cairo-1.18.2-3.el10.x86_64 522/581 Installing : libXft-2.3.8-8.el10.x86_64 523/581 Installing : pango-1.54.0-4.el10.x86_64 524/581 Running scriptlet: tk-1:8.6.13-5.el10.x86_64 525/581 Installing : tk-1:8.6.13-5.el10.x86_64 525/581 Installing : harfbuzz-cairo-8.4.0-6.el10.x86_64 526/581 Installing : xorg-x11-fonts-Type1-7.5-40.el10.noarch 527/581 Running scriptlet: xorg-x11-fonts-Type1-7.5-40.el10.noarch 527/581 Installing : google-droid-sans-fonts-20200215-22.el10.noarch 528/581 Installing : gettext-envsubst-0.22.5-6.el10.x86_64 529/581 Installing : gettext-runtime-0.22.5-6.el10.x86_64 530/581 Installing : gettext-0.22.5-6.el10.x86_64 531/581 Installing : freetype-devel-2.13.2-8.el10.x86_64 532/581 Installing : fontconfig-devel-2.15.0-7.el10.x86_64 533/581 Installing : cairo-devel-1.18.2-3.el10.x86_64 534/581 Installing : harfbuzz-devel-8.4.0-6.el10.x86_64 535/581 Installing : libXft-devel-2.3.8-8.el10.x86_64 536/581 Installing : emacs-filesystem-1:29.4-13.el10.noarch 537/581 Installing : autoconf-2.71-13.el10.noarch 538/581 Installing : automake-1.16.5-20.el10.noarch 539/581 Installing : dbus-libs-1:1.14.10-6.el10.x86_64 540/581 Installing : avahi-libs-0.9~rc2-7.el10.x86_64 541/581 Installing : cups-filesystem-1:2.4.10-18.el10.noarch 542/581 Installing : cups-libs-1:2.4.10-18.el10.x86_64 543/581 Installing : java-21-openjdk-headless-1:21.0.12.1.1-2.1.el10. 544/581 Running scriptlet: java-21-openjdk-headless-1:21.0.12.1.1-2.1.el10. 544/581 Installing : java-21-openjdk-1:21.0.12.1.1-2.1.el10.x86_64 545/581 Running scriptlet: java-21-openjdk-1:21.0.12.1.1-2.1.el10.x86_64 545/581 Installing : libgs-10.02.1-17.el10.x86_64 546/581 Installing : ghostscript-tools-fonts-10.02.1-17.el10.noarch 547/581 Installing : ghostscript-tools-printing-10.02.1-17.el10.noarc 548/581 Installing : ghostscript-10.02.1-17.el10.x86_64 549/581 Installing : texlive-thumbpdf-13:20240311-6.el10.noarch 550/581 Installing : texlive-collection-fontsrecommended-13:20240311- 551/581 Installing : texlive-collection-latex-13:20240311-6.el10.noar 552/581 Installing : texlive-collection-latexrecommended-13:20240311- 553/581 Installing : texlive-collection-basic-13:20240311-6.el10.noar 554/581 Installing : texlive-dvipdfmx-13:20240311-6.el10.x86_64 555/581 Installing : texlive-xetex-13:20240311-6.el10.x86_64 556/581 Installing : texlive-scheme-basic-13:20240311-6.el10.noarch 557/581 Installing : tre-common-0.8.0-47.20140228gitc2f5d13.el10.noar 558/581 Installing : tre-0.8.0-47.20140228gitc2f5d13.el10.x86_64 559/581 Installing : libdeflate-1.26-1.el10.x86_64 560/581 Installing : libdeflate-devel-1.26-1.el10.x86_64 561/581 Installing : tre-devel-0.8.0-47.20140228gitc2f5d13.el10.x86_6 562/581 Installing : texlive-13:20240311-6.el10.x86_64 563/581 Installing : texinfo-tex-7.1-6.el10.x86_64 564/581 Running scriptlet: texinfo-tex-7.1-6.el10.x86_64 564/581 Installing : java-21-openjdk-devel-1:21.0.12.1.1-2.1.el10.x86 565/581 Running scriptlet: java-21-openjdk-devel-1:21.0.12.1.1-2.1.el10.x86 565/581 Installing : libtool-2.4.7-14.el10.x86_64 566/581 Installing : pango-devel-1.54.0-4.el10.x86_64 567/581 Installing : tk-devel-1:8.6.13-5.el10.x86_64 568/581 Installing : texlive-upquote-13:20240311-6.el10.noarch 569/581 Installing : libcurl-devel-8.12.1-8.el10.x86_64 570/581 Installing : libtirpc-devel-1.3.5-1.el10.x86_64 571/581 Installing : gcc-gfortran-14.4.1-4.el10.x86_64 572/581 Installing : annobin-plugin-gcc-13.31-1.el10.x86_64 573/581 Running scriptlet: annobin-plugin-gcc-13.31-1.el10.x86_64 573/581 Installing : gcc-c++-14.4.1-4.el10.x86_64 574/581 Installing : gcc-plugin-annobin-14.4.1-4.el10.x86_64 575/581 Running scriptlet: gcc-plugin-annobin-14.4.1-4.el10.x86_64 575/581 Installing : libtiff-devel-4.6.0-11.el10.x86_64 576/581 Installing : libXmu-devel-1.1.4-8.el10.x86_64 577/581 Installing : readline-devel-8.2-11.el10.x86_64 578/581 Installing : flexiblas-devel-3.4.2-3.el10.x86_64 579/581 Installing : valgrind-devel-1:3.28.0-1.el10.x86_64 580/581 Installing : less-661-3.el10.x86_64 581/581 Running scriptlet: texlive-base-13:20240311-6.el10.noarch 581/581 Running scriptlet: urw-base35-bookman-fonts-20200910-21.el10.noarch 581/581 Running scriptlet: urw-base35-c059-fonts-20200910-21.el10.noarch 581/581 Running scriptlet: urw-base35-d050000l-fonts-20200910-21.el10.noarc 581/581 Running scriptlet: urw-base35-gothic-fonts-20200910-21.el10.noarch 581/581 Running scriptlet: urw-base35-nimbus-mono-ps-fonts-20200910-21.el10 581/581 Running scriptlet: urw-base35-nimbus-roman-fonts-20200910-21.el10.n 581/581 Running scriptlet: urw-base35-nimbus-sans-fonts-20200910-21.el10.no 581/581 Running scriptlet: urw-base35-p052-fonts-20200910-21.el10.noarch 581/581 Running scriptlet: urw-base35-standard-symbols-ps-fonts-20200910-21 581/581 Running scriptlet: urw-base35-z003-fonts-20200910-21.el10.noarch 581/581 Running scriptlet: fontconfig-2.15.0-7.el10.x86_64 581/581 Running scriptlet: java-21-openjdk-1:21.0.12.1.1-2.1.el10.x86_64 581/581 Running scriptlet: java-21-openjdk-devel-1:21.0.12.1.1-2.1.el10.x86 581/581 Running scriptlet: less-661-3.el10.x86_64 581/581 Installed: adobe-mappings-cmap-20230622-5.el10.noarch adobe-mappings-cmap-deprecated-20230622-5.el10.noarch adobe-mappings-pdf-20190401-9.el10.noarch alsa-lib-1.2.16.1-1.el10.x86_64 annobin-docs-13.31-1.el10.noarch annobin-plugin-gcc-13.31-1.el10.x86_64 autoconf-2.71-13.el10.noarch automake-1.16.5-20.el10.noarch avahi-libs-0.9~rc2-7.el10.x86_64 brotli-1.1.0-8.el10.x86_64 brotli-devel-1.1.0-8.el10.x86_64 bzip2-devel-1.0.8-25.el10.x86_64 cairo-1.18.2-3.el10.x86_64 cairo-devel-1.18.2-3.el10.x86_64 cmake-filesystem-3.31.8-1.el10.x86_64 cpp-14.4.1-4.el10.x86_64 cups-filesystem-1:2.4.10-18.el10.noarch cups-libs-1:2.4.10-18.el10.x86_64 dbus-libs-1:1.14.10-6.el10.x86_64 default-fonts-core-sans-4.1-3.el10.noarch emacs-filesystem-1:29.4-13.el10.noarch expat-2.7.3-4.el10.x86_64 flexiblas-3.4.2-3.el10.x86_64 flexiblas-devel-3.4.2-3.el10.x86_64 flexiblas-netlib-3.4.2-3.el10.x86_64 flexiblas-netlib64-3.4.2-3.el10.x86_64 flexiblas-openblas-openmp-3.4.2-3.el10.x86_64 flexiblas-openblas-openmp64-3.4.2-3.el10.x86_64 fontconfig-2.15.0-7.el10.x86_64 fontconfig-devel-2.15.0-7.el10.x86_64 fonts-filesystem-1:2.0.5-18.el10.noarch freetype-2.13.2-8.el10.x86_64 freetype-devel-2.13.2-8.el10.x86_64 fribidi-1.0.14-4.el10.x86_64 fribidi-devel-1.0.14-4.el10.x86_64 gcc-14.4.1-4.el10.x86_64 gcc-c++-14.4.1-4.el10.x86_64 gcc-gfortran-14.4.1-4.el10.x86_64 gcc-plugin-annobin-14.4.1-4.el10.x86_64 gettext-0.22.5-6.el10.x86_64 gettext-envsubst-0.22.5-6.el10.x86_64 gettext-libs-0.22.5-6.el10.x86_64 gettext-runtime-0.22.5-6.el10.x86_64 ghostscript-10.02.1-17.el10.x86_64 ghostscript-tools-fonts-10.02.1-17.el10.noarch ghostscript-tools-printing-10.02.1-17.el10.noarch glib2-2.80.4-22.el10.x86_64 glib2-devel-2.80.4-22.el10.x86_64 glibc-devel-2.39-147.el10.x86_64 gnutls-3.8.10-5.el10.x86_64 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texlive-memoir-13:20240311-6.el10.noarch texlive-metafont-13:20240311-6.el10.x86_64 texlive-metalogo-13:20240311-6.el10.noarch texlive-mflogo-13:20240311-6.el10.noarch texlive-mflogo-font-13:20240311-6.el10.noarch texlive-mfnfss-13:20240311-6.el10.noarch texlive-mfware-13:20240311-6.el10.x86_64 texlive-microtype-13:20240311-6.el10.noarch texlive-minitoc-13:20240311-6.el10.noarch texlive-mnsymbol-13:20240311-6.el10.noarch texlive-modes-13:20240311-6.el10.noarch texlive-mparhack-13:20240311-6.el10.noarch texlive-mptopdf-13:20240311-6.el10.noarch texlive-multido-13:20240311-6.el10.noarch texlive-multitoc-13:20240311-6.el10.noarch texlive-natbib-13:20240311-6.el10.noarch texlive-ncntrsbk-13:20240311-6.el10.noarch texlive-newfloat-13:20240311-6.el10.noarch texlive-notoccite-13:20240311-6.el10.noarch texlive-ntgclass-13:20240311-6.el10.noarch texlive-oberdiek-13:20240311-6.el10.noarch texlive-palatino-13:20240311-6.el10.noarch texlive-paralist-13:20240311-6.el10.noarch texlive-parallel-13:20240311-6.el10.noarch texlive-parskip-13:20240311-6.el10.noarch texlive-pdfcol-13:20240311-6.el10.noarch texlive-pdfcolfoot-13:20240311-6.el10.noarch texlive-pdfcolmk-13:20240311-6.el10.noarch texlive-pdfescape-13:20240311-6.el10.noarch texlive-pdflscape-13:20240311-6.el10.noarch texlive-pdfmanagement-testphase-13:20240311-6.el10.noarch texlive-pdfpages-13:20240311-6.el10.noarch texlive-pdftex-13:20240311-6.el10.x86_64 texlive-pdftexcmds-13:20240311-6.el10.noarch texlive-pgf-13:20240311-6.el10.noarch texlive-placeins-13:20240311-6.el10.noarch texlive-plain-13:20240311-6.el10.noarch texlive-polyglossia-13:20240311-6.el10.noarch texlive-psfrag-13:20240311-6.el10.noarch texlive-pslatex-13:20240311-6.el10.noarch texlive-psnfss-13:20240311-6.el10.noarch texlive-pspicture-13:20240311-6.el10.noarch texlive-pst-3d-13:20240311-6.el10.noarch texlive-pst-arrow-13:20240311-6.el10.noarch texlive-pst-coil-13:20240311-6.el10.noarch texlive-pst-eps-13:20240311-6.el10.noarch texlive-pst-fill-13:20240311-6.el10.noarch texlive-pst-grad-13:20240311-6.el10.noarch texlive-pst-math-13:20240311-6.el10.noarch texlive-pst-node-13:20240311-6.el10.noarch texlive-pst-plot-13:20240311-6.el10.noarch texlive-pst-text-13:20240311-6.el10.noarch texlive-pst-tools-13:20240311-6.el10.noarch texlive-pst-tree-13:20240311-6.el10.noarch texlive-pstricks-13:20240311-6.el10.noarch texlive-pstricks-add-13:20240311-6.el10.noarch texlive-pxfonts-13:20240311-6.el10.noarch texlive-ragged2e-13:20240311-6.el10.noarch texlive-rcs-13:20240311-6.el10.noarch texlive-realscripts-13:20240311-6.el10.noarch texlive-refcount-13:20240311-6.el10.noarch texlive-rerunfilecheck-13:20240311-6.el10.noarch texlive-rsfs-13:20240311-6.el10.noarch texlive-sansmath-13:20240311-6.el10.noarch texlive-sansmathaccent-13:20240311-6.el10.noarch texlive-sauerj-13:20240311-6.el10.noarch texlive-scheme-basic-13:20240311-6.el10.noarch texlive-section-13:20240311-6.el10.noarch texlive-seminar-13:20240311-6.el10.noarch texlive-sepnum-13:20240311-6.el10.noarch texlive-setspace-13:20240311-6.el10.noarch texlive-showexpl-13:20240311-6.el10.noarch texlive-stringenc-13:20240311-6.el10.noarch texlive-subfig-13:20240311-6.el10.noarch texlive-symbol-13:20240311-6.el10.noarch texlive-tex-13:20240311-6.el10.x86_64 texlive-tex-gyre-13:20240311-6.el10.noarch texlive-tex-gyre-math-13:20240311-6.el10.noarch texlive-tex-ini-files-13:20240311-6.el10.noarch texlive-texlive-common-doc-13:20240311-6.el10.noarch texlive-texlive-en-13:20240311-6.el10.noarch texlive-texlive-msg-translations-13:20240311-6.el10.noarch texlive-texlive-scripts-13:20240311-6.el10.noarch texlive-texlive-scripts-extra-13:20240311-6.el10.noarch texlive-texlive.infra-13:20240311-6.el10.noarch texlive-textcase-13:20240311-6.el10.noarch texlive-thumbpdf-13:20240311-6.el10.noarch texlive-times-13:20240311-6.el10.noarch texlive-tipa-13:20240311-6.el10.noarch texlive-titlesec-13:20240311-6.el10.noarch texlive-tools-13:20240311-6.el10.noarch texlive-translator-13:20240311-6.el10.noarch texlive-txfonts-13:20240311-6.el10.noarch texlive-typehtml-13:20240311-6.el10.noarch texlive-ucharcat-13:20240311-6.el10.noarch texlive-ucs-13:20240311-6.el10.noarch texlive-underscore-13:20240311-6.el10.noarch texlive-unicode-data-13:20240311-6.el10.noarch texlive-unicode-math-13:20240311-6.el10.noarch texlive-uniquecounter-13:20240311-6.el10.noarch texlive-upquote-13:20240311-6.el10.noarch texlive-url-13:20240311-6.el10.noarch texlive-utopia-13:20240311-6.el10.noarch texlive-varwidth-13:20240311-6.el10.noarch texlive-wasy-13:20240311-6.el10.noarch texlive-wasy-type1-13:20240311-6.el10.noarch texlive-wasysym-13:20240311-6.el10.noarch texlive-xcolor-13:20240311-6.el10.noarch texlive-xetex-13:20240311-6.el10.x86_64 texlive-xetexconfig-13:20240311-6.el10.noarch texlive-xfrac-13:20240311-6.el10.noarch texlive-xifthen-13:20240311-6.el10.noarch texlive-xkeyval-13:20240311-6.el10.noarch texlive-xltxtra-13:20240311-6.el10.noarch texlive-xunicode-13:20240311-6.el10.noarch texlive-zapfchan-13:20240311-6.el10.noarch texlive-zapfding-13:20240311-6.el10.noarch texlive-zref-13:20240311-6.el10.noarch tk-1:8.6.13-5.el10.x86_64 tk-devel-1:8.6.13-5.el10.x86_64 tre-0.8.0-47.20140228gitc2f5d13.el10.x86_64 tre-common-0.8.0-47.20140228gitc2f5d13.el10.noarch tre-devel-0.8.0-47.20140228gitc2f5d13.el10.x86_64 ttmkfdir-3.0.9-72.el10.x86_64 tzdata-2026e-1.el10.noarch tzdata-java-2026e-1.el10.noarch urw-base35-bookman-fonts-20200910-21.el10.noarch urw-base35-c059-fonts-20200910-21.el10.noarch urw-base35-d050000l-fonts-20200910-21.el10.noarch urw-base35-fonts-20200910-21.el10.noarch urw-base35-fonts-common-20200910-21.el10.noarch urw-base35-gothic-fonts-20200910-21.el10.noarch urw-base35-nimbus-mono-ps-fonts-20200910-21.el10.noarch urw-base35-nimbus-roman-fonts-20200910-21.el10.noarch urw-base35-nimbus-sans-fonts-20200910-21.el10.noarch urw-base35-p052-fonts-20200910-21.el10.noarch urw-base35-standard-symbols-ps-fonts-20200910-21.el10.noarch urw-base35-z003-fonts-20200910-21.el10.noarch valgrind-devel-1:3.28.0-1.el10.x86_64 xml-common-0.6.3-65.el10.noarch xorg-x11-fonts-Type1-7.5-40.el10.noarch xorg-x11-proto-devel-2024.1-3.el10.noarch xz-devel-1:5.6.2-5.el10.x86_64 zlib-ng-compat-devel-2.2.3-3.el10.x86_64 zziplib-0.13.78-2.el10.x86_64 Complete! Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1793232000 Wrote: /builddir/build/SRPMS/R-4.6.2-1.el10.src.rpm No matches found for the following disable plugin patterns: local, spacewalk, versionlock Copr repository 1.8 kB/s | 1.5 kB 00:00 CentOS Stream 10 - BaseOS 958 kB/s | 23 kB 00:00 CentOS Stream 10 - AppStream 1.1 MB/s | 23 kB 00:00 CentOS Stream 10 - CRB 960 kB/s | 22 kB 00:00 CentOS Stream 10 - Extras packages 1.1 MB/s | 25 kB 00:00 Package autoconf-2.71-13.el10.noarch is already installed. Package automake-1.16.5-20.el10.noarch is already installed. Package bzip2-devel-1.0.8-25.el10.x86_64 is already installed. Package cairo-devel-1.18.2-3.el10.x86_64 is already installed. Package flexiblas-devel-3.4.2-3.el10.x86_64 is already installed. Package gcc-c++-14.4.1-4.el10.x86_64 is already installed. Package gcc-gfortran-14.4.1-4.el10.x86_64 is already installed. Package java-21-openjdk-devel-1:21.0.12.1.1-2.1.el10.x86_64 is already installed. Package less-661-3.el10.x86_64 is already installed. Package libICE-devel-1.1.1-5.el10.x86_64 is already installed. Package libSM-devel-1.2.4-5.el10.x86_64 is already installed. Package libX11-devel-1.8.13-1.el10.x86_64 is already installed. Package libXmu-devel-1.1.4-8.el10.x86_64 is already installed. Package libXt-devel-1.3.0-5.el10.x86_64 is already installed. Package libcurl-devel-8.12.1-8.el10.x86_64 is already installed. Package libdeflate-devel-1.26-1.el10.x86_64 is already installed. Package libicu-devel-74.2-5.el10.x86_64 is already installed. Package libjpeg-turbo-devel-3.0.2-4.el10.x86_64 is already installed. Package libpng-devel-2:1.6.40-13.el10.x86_64 is already installed. Package libtiff-devel-4.6.0-11.el10.x86_64 is already installed. Package libtirpc-devel-1.3.5-1.el10.x86_64 is already installed. Package libtool-2.4.7-14.el10.x86_64 is already installed. Package libzstd-devel-1.5.5-9.el10.x86_64 is already installed. Package ncurses-devel-6.4-15.20240127.el10.x86_64 is already installed. Package pango-devel-1.54.0-4.el10.x86_64 is already installed. Package pcre2-devel-10.44-1.4.el10.x86_64 is already installed. Package readline-devel-8.2-11.el10.x86_64 is already installed. Package tcl-devel-1:8.6.13-4.el10.x86_64 is already installed. Package texlive-upquote-13:20240311-6.el10.noarch is already installed. Package texinfo-tex-7.1-6.el10.x86_64 is already installed. Package texlive-13:20240311-6.el10.x86_64 is already installed. Package texlive-helvetic-13:20240311-6.el10.noarch is already installed. Package texlive-times-13:20240311-6.el10.noarch is already installed. Package tk-devel-1:8.6.13-5.el10.x86_64 is already installed. Package tre-devel-0.8.0-47.20140228gitc2f5d13.el10.x86_64 is already installed. Package valgrind-devel-1:3.28.0-1.el10.x86_64 is already installed. Package xz-devel-1:5.6.2-5.el10.x86_64 is already installed. Package zlib-ng-compat-devel-2.2.3-3.el10.x86_64 is already installed. Dependencies resolved. Nothing to do. Complete! Finish: build setup for R-4.6.2-1.el10.src.rpm Start: rpmbuild R-4.6.2-1.el10.src.rpm Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1793232000 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.pORTrA + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf R-4.6.2 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/R-4.6.2.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd R-4.6.2 + rm -rf /builddir/build/BUILD/R-4.6.2-SPECPARTS + /usr/bin/mkdir -p /builddir/build/BUILD/R-4.6.2-SPECPARTS + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch): + echo 'Patch #0 (R-3.3.0-fix-java_path-in-javareconf.patch):' + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .fixpath --fuzz=0 patching file src/scripts/javareconf.in Hunk #1 succeeded at 79 (offset 1 line). + find . -name '._*' -delete + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.REMZAG + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd R-4.6.2 + sed -i -e '/R_LIBS_SITE=/s/^/#/g' etc/Renviron.in + echo 'R_LIBS_SITE=${R_LIBS_SITE-'\''/usr/local/lib/R/site-library:/usr/local/lib/R/library:/usr/lib64/R/library:/usr/share/R/library'\''}' + sed -i -e 's|texi2any_version_min} -lt 8|texi2any_version_min} -lt 7|' configure + export R_RD4PDF=times,hyper + R_RD4PDF=times,hyper + sed -i 's|inconsolata,||g' etc/Renviron.in + export R_PDFVIEWER=/usr/bin/xdg-open + R_PDFVIEWER=/usr/bin/xdg-open + export R_BROWSER=/usr/bin/xdg-open + R_BROWSER=/usr/bin/xdg-open + export JAVA_HOME=/usr/lib/jvm/jre + JAVA_HOME=/usr/lib/jvm/jre + texconfig rehash mktexlsr: /usr/share/texlive/texmf-config: directory not writable. Skipping... mktexlsr: /usr/share/texlive/texmf-dist: directory not writable. Skipping... mktexlsr: /usr/share/texlive/texmf-local//: directory not writable. Skipping... mktexlsr: /var/lib/texmf: directory not writable. Skipping... + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' '-flto=auto -ffat-lto-objectsx' '!=' x ']' ++ find . -type f -name configure -print + for file in $(find . -type f -name configure -print) + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\) = /__attribute__ ((used)) char (*f) () = /g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \(\*f\) \(\);/__attribute__ ((used)) char (*f) ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed -r --in-place=.backup 's/^char \$2 \(\);/__attribute__ ((used)) char \$2 ();/g' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup '1{$!N;$!N};$!N;s/int x = 1;\nint y = 0;\nint z;\nint nan;/volatile int x = 1; volatile int y = 0; volatile int z, nan;/;P;D' ./configure + diff -u ./configure.backup ./configure + mv ./configure.backup ./configure + /usr/bin/sed --in-place=.backup 's#^lt_cv_sys_global_symbol_to_cdecl=.*#lt_cv_sys_global_symbol_to_cdecl="sed -n -e '\''s/^T .* \\(.*\\)$/extern int \\1();/p'\'' -e '\''s/^$symcode* .* \\(.*\\)$/extern char \\1;/p'\''"#' ./configure + diff -u ./configure.backup ./configure --- ./configure.backup 2026-10-29 13:08:41.385000000 +0000 +++ ./configure 2026-10-29 13:08:41.508000000 +0000 @@ -12275,7 +12275,7 @@ # Transform an extracted symbol line into a proper C declaration. # Some systems (esp. on ia64) link data and code symbols differently, # so use this general approach. -lt_cv_sys_global_symbol_to_cdecl="sed -n"\ +lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'" $lt_cdecl_hook\ " -e 's/^T .* \(.*\)$/extern int \1();/p'"\ " -e 's/^$symcode$symcode* .* \(.*\)$/extern char \1;/p'" @@ -61721,7 +61721,7 @@ compiler='`$ECHO "$compiler" | $SED "$delay_single_quote_subst"`' GCC='`$ECHO "$GCC" | $SED "$delay_single_quote_subst"`' lt_cv_sys_global_symbol_pipe='`$ECHO "$lt_cv_sys_global_symbol_pipe" | $SED "$delay_single_quote_subst"`' -lt_cv_sys_global_symbol_to_cdecl='`$ECHO "$lt_cv_sys_global_symbol_to_cdecl" | $SED "$delay_single_quote_subst"`' +lt_cv_sys_global_symbol_to_cdecl="sed -n -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^$symcode* .* \(.*\)$/extern char \1;/p'" lt_cv_sys_global_symbol_to_import='`$ECHO "$lt_cv_sys_global_symbol_to_import" | $SED "$delay_single_quote_subst"`' lt_cv_sys_global_symbol_to_c_name_address='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address" | $SED "$delay_single_quote_subst"`' lt_cv_sys_global_symbol_to_c_name_address_lib_prefix='`$ECHO "$lt_cv_sys_global_symbol_to_c_name_address_lib_prefix" | $SED "$delay_single_quote_subst"`' + '[' 1 = 1 ']' +++ dirname ./configure ++ find . -name config.guess -o -name config.sub + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./tools/config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./tools/config.sub ++ basename ./tools/config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./tools/config.sub '/usr/lib/rpm/redhat/config.sub' -> './tools/config.sub' + for i in $(find $(dirname ./configure) -name config.guess -o -name config.sub) ++ basename ./tools/config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./tools/config.guess ++ basename ./tools/config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./tools/config.guess '/usr/lib/rpm/redhat/config.guess' -> './tools/config.guess' + '[' 1 = 1 ']' + '[' x '!=' 'x-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors' ']' ++ find . -name ltmain.sh + for i in $(find . -name ltmain.sh) + /usr/bin/sed -i.backup -e 's~compiler_flags=$~compiler_flags="-Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors"~' ./tools/ltmain.sh + tee CONFIGURE.log ++ grep -q runstatedir=DIR ./configure ++ echo --runstatedir=/run + ./configure --build=x86_64-redhat-linux --host=x86_64-redhat-linux --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib64 --libexecdir=/usr/libexec --localstatedir=/var --runstatedir=/run --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info rdocdir=/usr/share/doc/R rincludedir=/usr/include/R rsharedir=/usr/share/R --with-system-tre --with-blas=flexiblas --with-lapack --with-tcl-config=/usr/lib64/tclConfig.sh --with-tk-config=/usr/lib64/tkConfig.sh --enable-R-shlib --enable-prebuilt-html --enable-R-profiling --enable-memory-profiling configure: WARNING: unrecognized options: --disable-dependency-tracking checking build system type... x86_64-redhat-linux-gnu checking host system type... x86_64-redhat-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /usr/bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /usr/bin/sed checking for which... /usr/bin/which checking for less... /usr/bin/less checking for gtar... /usr/bin/gtar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 6.8... yes checking for ginstall-info... no checking for install-info... /usr/sbin/install-info checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /usr/bin/gzip checking for bzip2... /usr/bin/bzip2 using default browser ... /usr/bin/xdg-open checking for /usr/bin/xdg-open... /usr/bin/xdg-open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... no checking for byacc... no checking for yacc... no checking for notangle... false checking for realpath... /usr/bin/realpath checking for pkg-config... /usr/bin/pkg-config checking for x86_64-redhat-linux-gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc accepts -g... yes checking for gcc option to enable C11 features... none needed checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for wchar.h... yes checking for minix/config.h... no checking for sys/time.h... yes checking for sys/param.h... yes checking whether it is safe to define __EXTENSIONS__... yes checking whether _XOPEN_SOURCE should be defined... no checking whether gcc is a C23 compiler... no checking whether gcc -std=gnu23 is a C23 compiler... yes checking how to run the C preprocessor... gcc -std=gnu23 -E looking for a modern Fortran compiler checking for x86_64-redhat-linux-gfortran... no checking for x86_64-redhat-linux-g95... no checking for x86_64-redhat-linux-xlf95... no checking for x86_64-redhat-linux-f95... no checking for x86_64-redhat-linux-fort... no checking for x86_64-redhat-linux-ifort... no checking for x86_64-redhat-linux-ifc... no checking for x86_64-redhat-linux-efc... no checking for x86_64-redhat-linux-pgfortran... no checking for x86_64-redhat-linux-pgf95... no checking for x86_64-redhat-linux-lf95... no checking for x86_64-redhat-linux-ftn... no checking for x86_64-redhat-linux-nagfor... no checking for x86_64-redhat-linux-xlf90... no checking for x86_64-redhat-linux-f90... no checking for x86_64-redhat-linux-pgf90... no checking for x86_64-redhat-linux-pghpf... no checking for x86_64-redhat-linux-epcf90... no checking for x86_64-redhat-linux-g77... no checking for x86_64-redhat-linux-xlf... no checking for x86_64-redhat-linux-f77... no checking for x86_64-redhat-linux-frt... no checking for x86_64-redhat-linux-pgf77... no checking for x86_64-redhat-linux-cf77... no checking for x86_64-redhat-linux-fort77... no checking for x86_64-redhat-linux-fl32... no checking for x86_64-redhat-linux-af77... no checking for gfortran... gfortran checking whether the compiler supports GNU Fortran... yes checking whether gfortran accepts -g... yes checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc -std=gnu23 accepts -fvisibility... yes checking whether g++ accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for x86_64-redhat-linux-gcc... x86_64-redhat-linux-gcc checking whether the compiler supports GNU Objective C... no checking whether x86_64-redhat-linux-gcc accepts -g... no checking whether gcc -std=gnu17 is a C17 compiler... yes checking whether gcc -std=gnu90 is a C90 compiler... yes checking whether gcc -std=gnu99 is a C99 compiler... yes checking how to print strings... printf checking for a sed that does not truncate output... (cached) /usr/bin/sed checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for fgrep... /usr/bin/grep -F checking for ld used by gcc -std=gnu23... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-redhat-linux-gnu file names to x86_64-redhat-linux-gnu format... func_convert_file_noop checking how to convert x86_64-redhat-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for x86_64-redhat-linux-objdump... no checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for x86_64-redhat-linux-dlltool... no checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for x86_64-redhat-linux-ar... (cached) ar checking for archiver @FILE support... @ checking for x86_64-redhat-linux-strip... no checking for strip... strip checking for x86_64-redhat-linux-ranlib... no checking for ranlib... ranlib checking for gawk... gawk checking command to parse /usr/bin/nm -B output from gcc -std=gnu23 object... ./configure: line 12281: -e 's/^T .* \(.*\)$/extern int \1();/p' -e 's/^[ABCDGIRSTW][ABCDGIRSTW]* .* \(.*\)$/extern char \1;/p': No such file or directory ok checking for sysroot... no checking for a working dd... /usr/bin/dd checking how to truncate binary pipes... /usr/bin/dd bs=4096 count=1 checking for x86_64-redhat-linux-mt... no checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc -std=gnu23 supports -fno-rtti -fno-exceptions... no checking for gcc -std=gnu23 option to produce PIC... -fPIC -DPIC checking if gcc -std=gnu23 PIC flag -fPIC -DPIC works... yes checking if gcc -std=gnu23 static flag -static works... no checking if gcc -std=gnu23 supports -c -o file.o... yes checking if gcc -std=gnu23 supports -c -o file.o... (cached) yes checking whether the gcc -std=gnu23 linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... no checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for cos in -lm... yes checking for sin in -lm... yes checking for dlopen in -ldl... yes checking for readline/history.h... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking for tilde_expand_word... yes checking whether rl_completion_matches exists and is declared... yes checking whether rl_resize_terminal exists and is declared... yes checking whether rl_sort_completion_matches exists and is declared... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking for dlfcn.h... (cached) yes checking for fcntl.h... yes checking for glob.h... yes checking for grp.h... yes checking for pwd.h... yes checking for sched.h... yes checking for strings.h... (cached) yes checking for sys/resource.h... yes checking for sys/select.h... yes checking for sys/socket.h... yes checking for sys/stat.h... (cached) yes checking for sys/time.h... (cached) yes checking for sys/times.h... yes checking for sys/utsname.h... yes checking for unistd.h... (cached) yes checking for utime.h... yes checking for arpa/inet.h... yes checking for elf.h... yes checking for features.h... yes checking for floatingpoint.h... no checking for langinfo.h... yes checking for netdb.h... yes checking for netinet/in.h... yes checking for sys/param.h... (cached) yes checking for stdalign.h... yes checking for errno.h... yes checking for inttypes.h... (cached) yes checking for limits.h... yes checking for locale.h... yes checking for stdarg.h... yes checking for stdbool.h... yes checking for stdint.h... (cached) yes checking for string.h... (cached) yes checking for gcc -std=gnu23 options needed to detect all undeclared functions... none needed checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for egrep -e... (cached) /usr/bin/grep -E checking for GNU C library with version >= 2... yes checking for uint64_t... yes checking for int64_t... yes checking for int_fast64_t... yes checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for inline... inline checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of double... 8 checking size of size_t... 8 checking for C stack direction... down checking size of long double... 16 checking whether we can compute C Make dependencies... yes, using $(CC) -MM checking whether gcc -std=gnu23 supports -c -o FILE.lo... yes checking for gcc -std=gnu23 option to support OpenMP... -fopenmp checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/usr/lib/gcc/x86_64-redhat-linux/14 -L/usr/lib/gcc/x86_64-redhat-linux/14/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/14/../../.. -lgfortran -lm -lquadmath checking how to get verbose linking output from gcc -std=gnu23... -v checking for C libraries of gcc -std=gnu23... -L/usr/lib/gcc/x86_64-redhat-linux/14 -L/usr/lib/gcc/x86_64-redhat-linux/14/../../../../lib64 -L/lib/../lib64 -L/usr/lib/../lib64 -L/usr/lib/gcc/x86_64-redhat-linux/14/../../.. -lgcc_s checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external names... yes checking whether gfortran appends extra underscores to external names... no checking whether mixed C/Fortran code can be run... yes checking whether gfortran and gcc -std=gnu23 agree on int and double... yes checking whether gfortran and gcc -std=gnu23 agree on double complex... yes checking for gfortran option to support OpenMP... -fopenmp checking whether g++ accepts -M for generating dependencies... yes checking whether we can compute ObjC Make dependencies... no checking for ObjC runtime library... checking whether x86_64-redhat-linux-gcc accepts -fobjc-exceptions... no checking for type of 'hidden' Fortran character lengths... size_t checking for xmkmf... no checking whether g++ supports C++17 features with -std=gnu++17... yes checking whether g++ supports C++20 features with -std=gnu++20... yes checking whether g++ supports C++23 features with -std=gnu++23... yes checking whether g++ supports C++26 features with -std=gnu++26... yes checking whether g++ -std=gnu++20 can compile ObjC++... no checking for Objective C++ compiler... no working ObjC++ compiler found checking for g++ -std=gnu++20 option to support OpenMP... -fopenmp checking for option providing pthread_kill... none required checking whether POSIX threads are supported... yes checking for off_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether alloca is declared... yes checking whether expm1 exists and is declared... yes checking whether hypot exists and is declared... yes checking whether log1p exists and is declared... yes checking whether log1pl exists and is declared... yes checking whether log2 exists and is declared... yes checking whether log10 exists and is declared... yes checking whether nearbyint exists and is declared... yes checking whether nearbyintl exists and is declared... yes checking whether powl exists and is declared... yes checking whether rintl exists and is declared... yes checking whether va_copy exists and is declared... yes checking for isblank... yes checking for sunmath.h... no checking for cospi in -lsunmath... no checking for atanpi... no checking for atan2pi... no checking for cospi... no checking for exp10... yes checking for pown... no checking for sinpi... no checking for tanpi... no checking for __cospi... no checking for __sinpi... no checking for __tanpi... no checking for fseeko... yes checking for ftello... yes checking whether fcntl exists and is declared... yes checking whether getgrgid exists and is declared... yes checking whether getpwnam exists and is declared... yes checking whether getpwuid exists and is declared... yes checking whether kill exists and is declared... yes checking whether sigaction exists and is declared... yes checking whether sigaltstack exists and is declared... yes checking whether sigemptyset exists and is declared... yes checking whether fdopen exists and is declared... yes checking whether popen exists and is declared... yes checking whether getline exists and is declared... yes checking whether select exists and is declared... yes checking whether setenv exists and is declared... yes checking whether unsetenv exists and is declared... yes checking whether getrlimit exists and is declared... yes checking whether setrlimit exists and is declared... yes checking whether getrusage exists and is declared... yes checking whether getpriority exists and is declared... yes checking whether chmod exists and is declared... yes checking whether mkfifo exists and is declared... yes checking whether stat exists and is declared... yes checking whether umask exists and is declared... yes checking whether gettimeofday exists and is declared... yes checking whether utimes exists and is declared... yes checking whether times exists and is declared... yes checking whether gmtime_r exists and is declared... yes checking whether localtime_r exists and is declared... yes checking whether nl_langinfo exists and is declared... yes checking whether access exists and is declared... yes checking whether chdir exists and is declared... yes checking whether execv exists and is declared... yes checking whether ftruncate exists and is declared... yes checking whether getcwd exists and is declared... yes checking whether geteuid exists and is declared... yes checking whether getuid exists and is declared... yes checking whether link exists and is declared... yes checking whether readlink exists and is declared... yes checking whether symlink exists and is declared... yes checking whether sysconf exists and is declared... yes checking whether sched_setaffinity exists and is declared... yes checking whether sched_getaffinity exists and is declared... yes checking whether utime exists and is declared... yes checking whether utimensat exists and is declared... yes checking for clock_gettime in -lrt... yes checking whether clock_gettime exists and is declared... yes checking whether timespec_get exists and is declared... yes checking for putenv... yes checking whether putenv is declared... yes checking for vasprintf... yes checking whether vasprintf is declared... yes checking for mempcpy... yes checking for realpath... yes checking whether realpath is declared... yes checking whether glob exists and is declared... yes checking for dladdr... yes checking for dlsym... yes checking whether dladdr is declared... yes checking whether dlsym is declared... yes checking whether RTLD_DEFAULT is declared... yes checking whether RTLD_NEXT is declared... yes checking for thread.h... no checking whether thr_stksegment exists and is declared... no checking for stpcpy... yes checking for isnan... yes checking whether isfinite is declared... yes checking whether isnan is declared... yes checking whether you have IEEE 754 floating-point arithmetic... yes checking whether putenv("FOO") can unset an environment variable... yes checking whether putenv("FOO=") can unset an environment variable... no checking for nl_langinfo and CODESET... yes checking for mkdtemp... yes checking for strdup... yes checking for strncasecmp... yes checking whether mkdtemp is declared... yes checking whether strdup is declared... yes checking whether strncasecmp is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether the base type of an enum can be specified... yes checking whether mktime, gmtime, localtime work correctly in 2020... yes checking whether mktime sets errno... yes checking whether mktime works correctly after 2037... yes checking whether mktime works correctly before 1902... yes checking whether mktime works correctly in 1969... yes checking for complex.h... yes checking for double complex... yes checking whether C99 double complex is supported... yes checking whether cabs exists and is declared... yes checking whether carg exists and is declared... yes checking whether cexp exists and is declared... yes checking whether clog exists and is declared... yes checking whether csqrt exists and is declared... yes checking whether cpow exists and is declared... yes checking whether ccos exists and is declared... yes checking whether csin exists and is declared... yes checking whether ctan exists and is declared... yes checking whether cacos exists and is declared... yes checking whether casin exists and is declared... yes checking whether catan exists and is declared... yes checking whether ccosh exists and is declared... yes checking whether csinh exists and is declared... yes checking whether ctanh exists and is declared... yes checking for working ctanh... yes checking whether 'struct tm' includes tm_zone... yes checking whether 'struct tm' includes tm_gmtoff... yes checking for dgemm_ in -lflexiblas... yes checking whether double complex BLAS can be used... yes checking whether the BLAS is complete... yes checking for dpstrf_... yes checking for iconv.h... yes checking for iconv... yes checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes checking whether iconv accepts "CP1252"... yes checking for iconvlist... no checking for iconv... yes checking for iconv declaration... extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for wchar.h... (cached) yes checking for wctype.h... yes checking whether mbrtowc exists and is declared... yes checking whether wcrtomb exists and is declared... yes checking whether wcscoll exists and is declared... yes checking whether wcsftime exists and is declared... yes checking whether wcstod exists and is declared... yes checking whether mbstowcs exists and is declared... yes checking whether wcstombs exists and is declared... yes checking whether wctrans exists and is declared... yes checking whether wctype exists and is declared... yes checking whether iswctype exists and is declared... yes checking whether wcwidth exists and is declared... yes checking whether wcswidth exists and is declared... yes checking for wctrans_t... yes checking for mbstate_t... yes checking for ICU... yes checking for X... libraries , headers checking for gethostbyname... yes checking for connect... yes checking for remove... yes checking for shmat... yes checking for IceConnectionNumber in -lICE... yes checking for X11/Intrinsic.h... yes checking for XtToolkitInitialize in -lXt... yes using X11 ... yes checking for KeySym... yes checking for X11/Xmu/Atoms.h... yes checking for XmuInternAtom in -lXmu... yes checking whether pkg-config knows about cairo and pango... yes checking whether cairo including pango is >= 1.2 and works... yes checking for /usr/lib64/tclConfig.sh... /usr/lib64/tclConfig.sh checking for /usr/lib64/tkConfig.sh... /usr/lib64/tkConfig.sh checking for tcl.h... yes checking for tk.h... yes checking whether compiling/linking Tcl/Tk code works... yes checking for BSD networking... yes checking for rpc/types.h... no checking for tirpc/rpc/types.h... yes checking for tirpc/rpc/xdr.h... yes checking for XDR library... -ltirpc checking for XDR support... yes checking for inflateInit2_ in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.2.5... yes checking whether zlib support suffices... yes checking for BZ2_bzlibVersion in -lbz2... yes checking for bzlib.h... yes checking if bzip2 version >= 1.0.6... yes checking whether bzip2 support suffices... yes checking for lzma_version_number in -llzma... yes checking for lzma.h... yes checking if lzma version >= 5.0.3... yes checking for ZSTD_versionNumber in -lzstd... yes checking for zstd.h... yes checking if zstd version >= 1.3.3... yes checking for ZSTD_decompressBound... yes checking for libdeflate.h... yes checking for libdeflate_alloc_compressor in -ldeflate... yes yes checking for pcre2.h... yes checking for pcre2_compile_8 in -lpcre2-8... yes checking if PCRE2 has Unicode support... yes checking whether PCRE support suffices... yes checking for tre_regncompb in -ltre... yes checking for tre/tre.h... yes checking for curl-config... /usr/bin/curl-config checking libcurl version ... 8.12.1 checking for curl/curl.h... yes checking if libcurl is >= 7.28.0... yes checking if libcurl supports https... yes checking if pkg-config knows about libjpeg... yes checking if jpeglib version >= 6b... yes checking for jpeg_destroy_compress in -ljpeg... yes checking if pkg-config knows about libpng... yes checking if libpng version >= 1.2.7... yes checking for png_create_write_struct in -lpng... yes checking if pkg-config knows about libtiff... yes checking for tiffio.h... yes checking for TIFFOpen in -ltiff... yes checking whether leap seconds are treated according to POSIX... yes checking for inline... inline checking for struct stat.st_atim.tv_nsec... yes checking whether struct stat.st_atim is of type struct timespec... yes checking for setitimer... yes checking for gcc -std=gnu23 option to enable large file support... none needed checking for declarations of fseeko and ftello... yes checking whether KERN_USRSTACK sysctl is supported... no checking for visible __lib_stack_end... yes checking for lpr... no checking for lp... no checking for paperconf... false checking for Fortran flag to compile .f90 files... none checking for Fortran flag to compile .f95 files... none checking for gfortran option to support OpenMP... (cached) -fopenmp checking for recommended packages... yes checking whether NLS is requested... yes Configuring src/extra/intl directory checking for a race-free mkdir -p... /usr/bin/mkdir -p checking whether we are using the GNU C Library 2 or newer... yes checking for x86_64-redhat-linux-ranlib... ranlib checking for simple visibility declarations... yes checking for stdint.h... yes checking for getpagesize... yes checking for working mmap... yes checking whether integer division by zero raises SIGFPE... no checking for inttypes.h... yes checking for unsigned long long int... yes checking for inttypes.h... (cached) yes checking whether the inttypes.h PRIxNN macros are broken... no checking for ld used by gcc -std=gnu23... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking for shared library run path origin... done checking whether imported symbols can be declared weak... yes checking for multithread API to use... none checking for argz.h... yes checking for inttypes.h... (cached) yes checking for limits.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... (cached) yes checking for getcwd... yes checking for getegid... yes checking for geteuid... yes checking for getgid... yes checking for getuid... yes checking for mempcpy... (cached) yes checking for munmap... yes checking for stpcpy... (cached) yes checking for strcasecmp... yes checking for strdup... (cached) yes checking for strtoul... yes checking for tsearch... yes checking for argz_count... yes checking for argz_stringify... yes checking for argz_next... yes checking for __fsetlocking... yes checking whether feof_unlocked is declared... yes checking whether fgets_unlocked is declared... yes checking for iconv... (cached) yes checking for iconv declaration... (cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... no checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... (cached) yes checking for setenv... yes checking for setlocale... yes checking for snprintf... yes checking for wcslen... yes checking whether _snprintf is declared... no checking whether _snwprintf is declared... no checking whether getc_unlocked is declared... yes checking for nl_langinfo and CODESET... (cached) yes checking for LC_MESSAGES... yes checking for CFPreferencesCopyAppValue... (cached) no checking for CFLocaleCopyCurrent... (cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/sh configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands configure: WARNING: unrecognized options: --disable-dependency-tracking R is now configured for x86_64-redhat-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -std=gnu23 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 Fortran fixed-form compiler: gfortran -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules Default C++ compiler: g++ -std=gnu++20 -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 Fortran free-form compiler: gfortran -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules Obj-C compiler: x86_64-redhat-linux-gcc Interfaces supported: X11, tcltk External libraries: pcre2, readline, BLAS(FlexiBlas), LAPACK(in blas), tre, curl, libdeflate Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling, static HTML, libdeflate for lazyload Capabilities skipped: Options not enabled: shared BLAS Recommended packages: yes + cat CONFIGURE.log + grep -A30 'R is now' - + make V=1 make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/m4' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/m4' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/tools' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tools' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/html' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/html' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/etc' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/etc' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/share' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/share' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/scripts' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/scripts' mkdir -p -- ../../bin make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/scripts' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/scripts' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include' mkdir -p -- ../../include make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include/R_ext' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/appl' gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c integrate.c -o integrate.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c interv.c -o interv.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c maxcol.c -o maxcol.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c optim.c -o optim.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pretty.c -o pretty.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c uncmin.c -o uncmin.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dpbfa.f -o dpbfa.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dpbsl.f -o dpbsl.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dpoco.f -o dpoco.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dpodi.f -o dpodi.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dpofa.f -o dpofa.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dposl.f -o dposl.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dqrdc.f -o dqrdc.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dqrdc2.f -o dqrdc2.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dqrls.f -o dqrls.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dqrsl.f -o dqrsl.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dqrutl.f -o dqrutl.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dsvdc.f -o dsvdc.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dtrco.f -o dtrco.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/appl' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/appl' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath' gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mlutils.c -o mlutils.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c d1mach.c -o d1mach.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c i1mach.c -o i1mach.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmax2.c -o fmax2.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmin2.c -o fmin2.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fprec.c -o fprec.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fround.c -o fround.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ftrunc.c -o ftrunc.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sign.c -o sign.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fsign.c -o fsign.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imax2.c -o imax2.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imin2.c -o imin2.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chebyshev.c -o chebyshev.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c log1p.c -o log1p.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgammacor.c -o lgammacor.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gammalims.c -o gammalims.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stirlerr.c -o stirlerr.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bd0.c -o bd0.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma.c -o gamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgamma.c -o lgamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma_cody.c -o gamma_cody.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c beta.c -o beta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lbeta.c -o lbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c polygamma.c -o polygamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cospi.c -o cospi.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_i.c -o bessel_i.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_j.c -o bessel_j.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_k.c -o bessel_k.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_y.c -o bessel_y.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c choose.c -o choose.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c snorm.c -o snorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sexp.c -o sexp.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgamma.c -o dgamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgamma.c -o pgamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgamma.c -o qgamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgamma.c -o rgamma.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbeta.c -o dbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbeta.c -o pbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbeta.c -o qbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbeta.c -o rbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dunif.c -o dunif.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c punif.c -o punif.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qunif.c -o qunif.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c runif.c -o runif.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnorm.c -o dnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnorm.c -o pnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnorm.c -o qnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnorm.c -o rnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlnorm.c -o dlnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plnorm.c -o plnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlnorm.c -o qlnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlnorm.c -o rlnorm.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c df.c -o df.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pf.c -o pf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qf.c -o qf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rf.c -o rf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnf.c -o dnf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dt.c -o dt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pt.c -o pt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qt.c -o qt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rt.c -o rt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnt.c -o dnt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dchisq.c -o dchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pchisq.c -o pchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qchisq.c -o qchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rchisq.c -o rchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnchisq.c -o rnchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbinom.c -o dbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbinom.c -o pbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbinom.c -o qbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbinom.c -o rbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rmultinom.c -o rmultinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dcauchy.c -o dcauchy.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pcauchy.c -o pcauchy.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qcauchy.c -o qcauchy.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rcauchy.c -o rcauchy.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dexp.c -o dexp.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pexp.c -o pexp.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qexp.c -o qexp.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rexp.c -o rexp.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgeom.c -o dgeom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgeom.c -o pgeom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgeom.c -o qgeom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgeom.c -o rgeom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dhyper.c -o dhyper.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c phyper.c -o phyper.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qhyper.c -o qhyper.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rhyper.c -o rhyper.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbinom.c -o dnbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbinom.c -o pnbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom.c -o qnbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom_mu.c -o qnbinom_mu.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnbinom.c -o rnbinom.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dpois.c -o dpois.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ppois.c -o ppois.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qpois.c -o qpois.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpois.c -o rpois.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dweibull.c -o dweibull.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pweibull.c -o pweibull.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qweibull.c -o qweibull.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rweibull.c -o rweibull.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlogis.c -o dlogis.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plogis.c -o plogis.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlogis.c -o qlogis.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlogis.c -o rlogis.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnchisq.c -o dnchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnchisq.c -o pnchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnchisq.c -o qnchisq.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbeta.c -o dnbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbeta.c -o pnbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbeta.c -o qnbeta.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnf.c -o pnf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnt.c -o pnt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnf.c -o qnf.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnt.c -o qnt.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ptukey.c -o ptukey.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qtukey.c -o qtukey.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c toms708.c -o toms708.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c wilcox.c -o wilcox.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/unix' gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rembedded.c -o Rembedded.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dynload.c -o dynload.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c system.c -o system.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ./sys-unix.c -o sys-unix.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sys-std.c -o sys-std.o gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/unix' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/unix' gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -DR_HOME='"/builddir/build/BUILD/R-4.6.2"' \ -o Rscript ./Rscript.c make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/unix' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/unix' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altclasses.d from altclasses.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making clippath.d from clippath.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making flexiblas.d from flexiblas.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making machine.d from machine.c making main.d from main.c making mapply.d from mapply.c making mask.d from mask.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making patterns.d from patterns.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c CommandLineArgs.c -o CommandLineArgs.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rdynload.c -o Rdynload.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Renviron.c -o Renviron.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c RNG.c -o RNG.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agrep.c -o agrep.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c altclasses.c -o altclasses.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c altrep.c -o altrep.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c apply.c -o apply.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c arithmetic.c -o arithmetic.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c array.c -o array.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c attrib.c -o attrib.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bind.c -o bind.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c builtin.c -o builtin.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c character.c -o character.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c clippath.c -o clippath.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coerce.c -o coerce.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c colors.c -o colors.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c complex.c -o complex.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c connections.c -o connections.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c context.c -o context.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cum.c -o cum.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dcf.c -o dcf.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c datetime.c -o datetime.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c debug.c -o debug.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c deparse.c -o deparse.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devices.c -o devices.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dotcode.c -o dotcode.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dounzip.c -o dounzip.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dstruct.c -o dstruct.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c duplicate.c -o duplicate.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c edit.c -o edit.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c engine.c -o engine.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c envir.c -o envir.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c errors.c -o errors.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c eval.c -o eval.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c flexiblas.c -o flexiblas.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c format.c -o format.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gevents.c -o gevents.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gram.c -o gram.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gram-ex.c -o gram-ex.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c graphics.c -o graphics.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c grep.c -o grep.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c identical.c -o identical.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c inlined.c -o inlined.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c inspect.c -o inspect.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c internet.c -o internet.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c iosupport.c -o iosupport.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lapack.c -o lapack.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c list.c -o list.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c localecharset.c -o localecharset.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c logic.c -o logic.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c machine.c -o machine.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c main.c -o main.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mapply.c -o mapply.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mask.c -o mask.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c match.c -o match.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c memory.c -o memory.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c names.c -o names.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c objects.c -o objects.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c options.c -o options.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c paste.c -o paste.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c patterns.c -o patterns.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c platform.c -o platform.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plot.c -o plot.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plot3d.c -o plot3d.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plotmath.c -o plotmath.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c print.c -o print.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c printarray.c -o printarray.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c printvector.c -o printvector.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c printutils.c -o printutils.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qsort.c -o qsort.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c radixsort.c -o radixsort.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c random.c -o random.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c raw.c -o raw.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c registration.c -o registration.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c relop.c -o relop.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlocale.c -o rlocale.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c saveload.c -o saveload.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c scan.c -o scan.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c seq.c -o seq.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c serialize.c -o serialize.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sort.c -o sort.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c source.c -o source.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c split.c -o split.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sprintf.c -o sprintf.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c startup.c -o startup.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c subassign.c -o subassign.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c subscript.c -o subscript.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c subset.c -o subset.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c summary.c -o summary.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sysutils.c -o sysutils.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c times.c -o times.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c unique.c -o unique.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c util.c -o util.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c version.c -o version.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c g_alab_her.c -o g_alab_her.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c g_cntrlify.c -o g_cntrlify.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c g_fontdb.c -o g_fontdb.o gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c g_her_glyph.c -o g_her_glyph.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c xxxpr.f -o xxxpr.o gcc -std=gnu23 -shared -fopenmp -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o clippath.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o flexiblas.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o machine.o main.o mapply.o mask.o match.o memory.o names.o objects.o options.o paste.o patterns.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` -lflexiblas -lgfortran -lm -lquadmath -lreadline -ltre -lpcre2-8 -ldeflate -lzstd -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' mkdir -p -- /builddir/build/BUILD/R-4.6.2/bin/exec mkdir -p -- /builddir/build/BUILD/R-4.6.2/lib make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' gcc -std=gnu23 -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I/usr/local/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rmain.c -o Rmain.o gcc -std=gnu23 -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o R.bin Rmain.o -lR make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making sock.d from sock.c making sockconn.d from sockconn.c make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c internet.c -o internet.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c sock.c -o sock.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu23 -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o sock.o sockconn.o -lcurl -lR make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' mkdir -p -- /builddir/build/BUILD/R-4.6.2/modules make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' making Lapack.d from Lapack.c make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Lapack.c -o Lapack.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ../../main/flexiblas.c -o flexiblas.o gcc -std=gnu23 -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o lapack.so Lapack.o flexiblas.o -lR -lflexiblas -lgfortran -lm -lquadmath make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' gcc -std=gnu23 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -DWITH_GZFILEOP -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -DWITH_GZFILEOP -I/usr/include/sysprof-6 -pthread -I/usr/include/pixman-1 -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devX11.c -o devX11.o gcc -std=gnu23 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -DWITH_GZFILEOP -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -DWITH_GZFILEOP -I/usr/include/sysprof-6 -pthread -I/usr/include/pixman-1 -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rotated.c -o rotated.o gcc -std=gnu23 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -DWITH_GZFILEOP -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -DWITH_GZFILEOP -I/usr/include/sysprof-6 -pthread -I/usr/include/pixman-1 -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbitmap.c -o rbitmap.o gcc -std=gnu23 -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lpng16 -lcairo -lX11 -lXext -lX11 -lXt -lXmu -lR -lm gcc -std=gnu23 -I/usr/include/libpng16 -DWITH_GZFILEOP -I/usr/include/webp -DWITH_GZFILEOP -I. -I../../../src/include -I../../../src/include -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/libpng16 -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -DWITH_GZFILEOP -I/usr/include/sysprof-6 -pthread -I/usr/include/pixman-1 -I../../../src/library/grDevices/src/cairo -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dataentry.c -o dataentry.o gcc -std=gnu23 -shared -L"../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lpng16 -lcairo -lX11 -lXext -lX11 -lXt -lXmu -lR -lm make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' mkdir -p -- ../../library make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/profile' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/translations' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/translations' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/translations' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/base' building package 'base' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/base' mkdir -p -- ../../../library/base/demo make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/base' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/base' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools mkdir -p -- ../../../library/tools/misc make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' mkdir -p -- ../../../library/tools/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c making pdscan.d from pdscan.c making Rsha256.d from Rsha256.c making sha256.d from sha256.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c text.c -o text.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rmd5.c -o Rmd5.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c md5.c -o md5.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c signals.c -o signals.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c install.c -o install.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c getfmts.c -o getfmts.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c http.c -o http.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gramLatex.c -o gramLatex.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gramRd.c -o gramRd.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pdscan.c -o pdscan.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rsha256.c -o Rsha256.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sha256.c -o sha256.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o pdscan.o Rsha256.o sha256.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' installing 'sysdata.rda' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' byte-compiling package 'compiler' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/compiler' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/base' byte-compiling package 'base' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/base' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' byte-compiling package 'tools' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tools' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c making hashtab.d from hashtab.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c io.c -o io.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c size.c -o size.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sock.c -o sock.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stubs.c -o stubs.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c utils.c -o utils.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c hashtab.c -o hashtab.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o utils.so init.o io.o size.o sock.o stubs.o utils.o hashtab.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' installing 'sysdata.rda' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' byte-compiling package 'utils' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/utils' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/fonts/Roboto mkdir -p -- ../../../library/grDevices/fonts/Montserrat/static mkdir -p -- ../../../library/grDevices/icc make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making clippath.d from clippath.c making patterns.d from patterns.c making mask.d from mask.c making group.d from group.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c axis_scales.c -o axis_scales.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chull.c -o chull.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devices.c -o devices.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stubs.c -o stubs.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c colors.c -o colors.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c clippath.c -o clippath.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c patterns.c -o patterns.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mask.c -o mask.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c group.c -o group.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devCairo.c -o devCairo.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devPicTeX.c -o devPicTeX.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devPS.c -o devPS.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c devQuartz.c -o devQuartz.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o clippath.o patterns.o mask.o group.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[7]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[8]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' gcc -std=gnu23 -I. -I../../../../../src/include -I../../../../../src/include -I/usr/include/pango-1.0 -I/usr/include/cairo -I/usr/include/harfbuzz -I/usr/include/freetype2 -I/usr/include/glib-2.0 -I/usr/lib64/glib-2.0/include -I/usr/include/libpng16 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/libxml2 -I/usr/include/sysprof-6 -pthread -I/usr/include/pixman-1 -DWITH_GZFILEOP -I../../../../../src/modules/X11 -I/usr/local/include -DHAVE_CONFIG_H -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cairoBM.c -o cairoBM.o gcc -std=gnu23 -shared -L"../../../../../lib" -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lz -lcairo -lpng16 -L"../../../../../lib" -lR -lm make[9]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src/cairo' make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' byte-compiling package 'grDevices' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grDevices' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c base.c -o base.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c graphics.c -o graphics.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c par.c -o par.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plot.c -o plot.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plot3d.c -o plot3d.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stem.c -o stem.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' byte-compiling package 'graphics' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/graphics' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats mkdir -p -- ../../../library/stats/doc make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' mkdir -p -- ../../../library/stats/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making stl.d from stl.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c making permdist.d from permdist.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c kmeans.c -o kmeans.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ansari.c -o ansari.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bandwidths.c -o bandwidths.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chisqsim.c -o chisqsim.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c d2x2xk.c -o d2x2xk.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fexact.c -o fexact.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c kendall.c -o kendall.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ks.c -o ks.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c line.c -o line.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c smooth.c -o smooth.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c prho.c -o prho.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c swilk.c -o swilk.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ksmooth.c -o ksmooth.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c loessc.c -o loessc.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c monoSpl.c -o monoSpl.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c isoreg.c -o isoreg.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Srunmed.c -o Srunmed.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dblcen.c -o dblcen.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c distance.c -o distance.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c hclust-utils.c -o hclust-utils.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nls.c -o nls.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rWishart.c -o rWishart.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c HoltWinters.c -o HoltWinters.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c PPsum.c -o PPsum.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c arima.c -o arima.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c burg.c -o burg.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c filter.c -o filter.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mAR.c -o mAR.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pacf.c -o pacf.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c starma.c -o starma.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stl.c -o stl.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c port.c -o port.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c family.c -o family.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sbart.c -o sbart.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c approx.c -o approx.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c loglin.c -o loglin.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lowess.c -o lowess.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c massdist.c -o massdist.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c splines.c -o splines.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lm.c -o lm.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c complete_cases.c -o complete_cases.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cov.c -o cov.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c deriv.c -o deriv.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fft.c -o fft.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fourier.c -o fourier.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c model.c -o model.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c optim.c -o optim.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c optimize.c -o optimize.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c integrate.c -o integrate.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c random.c -o random.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c distn.c -o distn.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c zeroin.c -o zeroin.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rcont.c -o rcont.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c influence.c -o influence.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fopenmp -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c permdist.c -o permdist.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c bsplvd.f -o bsplvd.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c bvalue.f -o bvalue.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c bvalus.f -o bvalus.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c loessf.f -o loessf.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c ppr.f -o ppr.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c qsbart.f -o qsbart.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c sgram.f -o sgram.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c sinerp.f -o sinerp.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c sslvrg.f -o sslvrg.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c stxwx.f -o stxwx.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c hclust.f -o hclust.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c kmns.f -o kmns.o gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c eureka.f -o eureka.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -msse2 -mfpmath=sse -c portsrc.f -o portsrc.o portsrc.f: In function ‘i7do_’: portsrc.f:6648:72: warning: ‘jcol’ may be used uninitialized [-Wmaybe-uninitialized] 6648 | LIST(JCOL) = NUMORD | ^ portsrc.f:6574:44: note: ‘jcol’ was declared here 6574 | INTEGER DEG,HEAD,IC,IP,IPL,IPU,IR,JCOL,JP,JPL,JPU,L,MAXINC, | ^ portsrc.f: In function ‘dl7mst_’: portsrc.f:5658:18: warning: ‘psifac’ may be used uninitialized [-Wmaybe-uninitialized] 5658 | IF (ALPHAK .GE. TWOPSI*PSIFAC) GO TO 310 | ^ portsrc.f:5378:62: note: ‘psifac’ was declared here 5378 | 1 LK, OLDPHI, PHI, PHIMAX, PHIMIN, PSIFAC, RAD, | ^ portsrc.f:5521:51: warning: ‘alphak’ may be used uninitialized [-Wmaybe-uninitialized] 5521 | IF (ALPHAK .LE. ZERO .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK) | ^ portsrc.f:5377:37: note: ‘alphak’ was declared here 5377 | DOUBLE PRECISION A, ADI, ALPHAK, B, DFACSQ, DST, DTOL, D1, D2, | ^ portsrc.f: In function ‘dg7qts_’: portsrc.f:10325:72: warning: ‘phi’ may be used uninitialized [-Wmaybe-uninitialized] 10325 | LK = DMAX1(LK, PHI*W(PHIPIN)) | ^ portsrc.f:10078:34: note: ‘phi’ was declared here 10078 | 1 OLDPHI, PHI, PHIMAX, PHIMIN, PSIFAC, RAD, RADSQ, | ^ portsrc.f:10467:10: warning: ‘kamin’ may be used uninitialized [-Wmaybe-uninitialized] 10467 | IF (KA .GE. KAMIN) GO TO 340 | ^ portsrc.f:10076:32: note: ‘kamin’ was declared here 10076 | 1 J, K, KALIM, KAMIN, K1, LK0, PHIPIN, Q, Q0, UK0, X | ^ portsrc.f:10330:55: warning: ‘alphak’ may be used uninitialized [-Wmaybe-uninitialized] 10330 | IF (-V(DST0) .GE. ALPHAK .OR. ALPHAK .LT. LK .OR. ALPHAK .GE. UK) | ^ portsrc.f:10077:29: note: ‘alphak’ was declared here 10077 | DOUBLE PRECISION ALPHAK, AKI, AKK, DELTA, DST, EPS, GTSTA, LK, | ^ portsrc.f: In function ‘dd7dgb_’: portsrc.f:12247:72: warning: ‘dnwtst’ may be used uninitialized [-Wmaybe-uninitialized] 12247 | V(DST0) = DNWTST | ^ portsrc.f:12106:29: note: ‘dnwtst’ was declared here 12106 | DOUBLE PRECISION DNWTST, GHINVG, GNORM, GNORM0, NRED, PRED, RAD, | ^ portsrc.f:12106:58: warning: ‘nred’ may be used uninitialized [-Wmaybe-uninitialized] 12106 | DOUBLE PRECISION DNWTST, GHINVG, GNORM, GNORM0, NRED, PRED, RAD, | ^ portsrc.f: In function ‘dg7qsb_’: portsrc.f:2457:32: warning: ‘nred’ may be used uninitialized [-Wmaybe-uninitialized] 2457 | DOUBLE PRECISION DS0, NRED, PRED, RAD | ^ portsrc.f:2514:72: warning: ‘ds0’ may be used uninitialized [-Wmaybe-uninitialized] 2514 | 60 V(DST0) = DS0 | ^ portsrc.f:2457:26: note: ‘ds0’ was declared here 2457 | DOUBLE PRECISION DS0, NRED, PRED, RAD | ^ portsrc.f: In function ‘dl7msb_’: portsrc.f:8086:32: warning: ‘nred’ may be used uninitialized [-Wmaybe-uninitialized] 8086 | DOUBLE PRECISION DS0, NRED, PRED, RAD | ^ portsrc.f:8173:72: warning: ‘ds0’ may be used uninitialized [-Wmaybe-uninitialized] 8173 | 90 V(DST0) = DS0 | ^ portsrc.f:8086:26: note: ‘ds0’ was declared here 8086 | DOUBLE PRECISION DS0, NRED, PRED, RAD | ^ portsrc.f: In function ‘df7hes_’: portsrc.f:8652:72: warning: ‘hes’ may be used uninitialized [-Wmaybe-uninitialized] 8652 | 210 IV(FDH) = HES | ^ portsrc.f:8450:25: note: ‘hes’ was declared here 8450 | INTEGER GSAVE1, HES, HMI, HPI, HPM, I, K, KIND, L, M, MM1, MM1O2, | ^ portsrc.f: In function ‘dparck_’: portsrc.f:3587:10: warning: ‘miv2’ may be used uninitialized [-Wmaybe-uninitialized] 3587 | IF (LIV .LT. MIV2) GO TO 300 | ^ portsrc.f:3520:54: note: ‘miv2’ was declared here 3520 | INTEGER ALG1, I, II, IV1, J, K, L, M, MIV1, MIV2, NDFALT, PARSV1, | ^ portsrc.f: In function ‘drn2gb_’: portsrc.f:12080:72: warning: ‘g1’ may be used uninitialized [-Wmaybe-uninitialized] 12080 | 270 CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X) | ^ portsrc.f:11823:16: note: ‘g1’ was declared here 11823 | INTEGER G1, GI, I, IV1, IVMODE, JTOL1, L, LH, NN, QTR1, | ^ portsrc.f: In function ‘drn2g_’: portsrc.f:458:72: warning: ‘g1’ may be used uninitialized [-Wmaybe-uninitialized] 458 | 300 CALL DITSUM(D, V(G1), IV, LIV, LV, P, V, X) | ^ portsrc.f:157:16: note: ‘g1’ was declared here 157 | INTEGER G1, GI, I, IV1, IVMODE, JTOL1, K, L, LH, NN, QTR1, | ^ gfortran -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c lminfl.f -o lminfl.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o stl.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o permdist.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o portsrc.o lminfl.o -fopenmp -lflexiblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' byte-compiling package 'stats' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/datasets' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/datasets' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' mkdir -p -- ../../../library/methods/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c do_substitute_direct.c -o do_substitute_direct.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c slot.c -o slot.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c class_support.c -o class_support.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c tests.c -o tests.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c utils.c -o utils.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' byte-compiling package 'methods' initializing class and method definitions ... done make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/methods' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' mkdir -p -- ../../../library/grid/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid/src' making clippath.d from clippath.c making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making mask.d from mask.c making matrix.d from matrix.c making path.d from path.c making register.d from register.c making state.d from state.c making typeset.d from typeset.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c clippath.c -o clippath.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gpar.c -o gpar.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c grid.c -o grid.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c just.c -o just.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c layout.c -o layout.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mask.c -o mask.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c matrix.c -o matrix.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c path.c -o path.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c register.c -o register.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c state.c -o state.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c typeset.c -o typeset.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c unit.c -o unit.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c util.c -o util.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c viewport.c -o viewport.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o typeset.o unit.o util.o viewport.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' byte-compiling package 'grid' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/grid' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' mkdir -p -- ../../../library/splines/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines/src' making splines.d from splines.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c splines.c -o splines.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o splines.so splines.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' byte-compiling package 'splines' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/splines' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' byte-compiling package 'stats4' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/stats4' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c tcltk.c -o tcltk.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include -I/usr/include -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib64 -ltcl8.6 -L/usr/lib64 -ltk8.6 -lX11 -lm -L../../../../lib -lR make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk/src' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' byte-compiling package 'tcltk' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/tcltk' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' make[5]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rngstream.c -o rngstream.o gcc -std=gnu23 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fork.c -o fork.o gcc -std=gnu23 -shared -L../../../../lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[6]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[6]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel/src' make[5]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel/src' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' byte-compiling package 'parallel' make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/parallel' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/base' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/base' installing parsed NAMESPACE files installing R bibliographies installing R dictionaries make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' make[1]: Nothing to be done for 'R'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' you should 'make docs' now ... make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc' creating doc/NEWS creating doc/NEWS.pdf make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/html' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/html' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' installing parsed Rd make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' building/updating package metadata ... make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' writing package indices make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' building all R object docs converting help for package 'base' abbreviate html agrep html all.equal html all html allnames html any html aperm html append html apply html args html Arithmetic html array html array2DF html as.data.frame html as.Date html as.environment html as.function html as.POSIXlt html AsIs html asplit html assign html assignOps html attach html attr html attributes html autoload html backsolve html balancePOSIXlt html base-defunct html base-deprecated html base-internal html base-package html basename html Bessel html bincode html bindenv html bitwise html body html bquote html browser html browserText html builtins html by html c html call html callCC html CallExternal html capabilities html cat html cbind html char.expand html character html charmatch html chartr html chkDots html chol html chol2inv html chooseOpsMethod html class html col html colnames html Colon html colSums html commandArgs html comment html Comparison html complex html conditions html conflicts html connections html Constants html contributors html Control html copyright html crossprod html Cstack_info html cumsum html curlGetHeaders html cut.POSIXt html cut html data.class html data.frame html data.matrix html dataframeHelpers html date html Dates html DateTimeClasses html dcf html debug html declare html Defunct html delayedAssign html deparse html deparseOpts html Deprecated html det html detach html dev html diag html diff html difftime html dim html dimnames html do.call html dontCheck html dots html double html dput html drop html droplevels html dump html duplicated html dynload html eapply html eigen html encodeString html Encoding html environment html EnvVar html eval html exists html expand.grid html expression html Extract.data.frame html Extract.factor html Extract html Extremes html extSoftVersion html factor html file.access html file.choose html file.info html file.path html file.show html files html files2 html find.package html findInterval html force html forceAndCall html Foreign-internal html Foreign html formals html format.info html format.pval html format html formatc html formatDL html function html funprog html gc html gc.time html gctorture html get html getCallingDLL html getDLLRegisteredRoutines html getLoadedDLLs html getNativeSymbolInfo html gettext html getwd html gl html grep html grepRaw html groupGeneric html grouping html gzcon html hexmode html Hyperbolic html iconv html icuSetCollate html identical html identity html ifelse html integer html interaction html interactive html Internal html InternalMethods html invisible html is.finite html is.function html is.language html is.object html is.recursive html is.single html is.unsorted html ISOdatetime html isS4 html isSymmetric html jitter html kappa html kronecker html l10n_info html La_library html La_version html labels html lapply html Last.value html lazyload html length html lengths html levels html libcurlVersion html libPaths html library.dynam html library html license html list.files html list html list2DF html list2env html load html locales html Log html Logic html logical html LongVectors html lower.tri html ls html make.names html make.unique html mapply html marginSums html mat.or.vec html match.arg html match.call html match.fun html match html MathFun html matmult html matrix html maxCol html mean html memCompress html memlimits html Memory-limits html memory.profile html Memory html merge html message html missing html mode html mtfrm html NA html name html names html nargs html nchar html nlevels html noquote html norm html normalizePath html notyet html nrow html ns-dblcolon html ns-hooks html ns-internal html ns-load html ns-reflect html ns-topenv html NULL html numeric_version html numeric html NumericConstants html octmode html on.exit html Ops.Date html options html order html outer html Paren html parse html paste html path.expand html pcre_config html pipeOp html Platform html plot html pmatch html polyroot html pos.to.env html pretty html Primitive html print.dataframe html print.default html print html prmatrix html proc.time html prod html proportions html pushBack html qr html qraux html quit html Quotes html Random-user html Random html range html rank html rapply html raw html rawConnection html rawConversion html RdUtils html readBin html readChar html readline html readLines html readRDS html readRenviron html Recall html reg.finalizer html regex html regmatches html rep html replace html Reserved html rev html Rhome html rle html rm html round.POSIXt html Round html row.names html row html rowsum html S3method html sample html save html scale html scan html search html seek html seq.Date html seq.POSIXt html seq html sequence html serialize html sets html setTimeLimit html showConnections html shQuote html sign html sink html slice.index html slotOp html socketSelect html solve html sort_by html sort html source html Special html split html sprintf html sQuote html srcfile html StackOverflows html standardGeneric html startsWith html Startup html stop html stopifnot html strptime html strrep html strsplit html strtoi html strtrim html structure html strwrap html subset html substitute html substr html sum html summary html svd html sweep html switch html Syntax html Sys.getenv html Sys.getpid html Sys.glob html Sys.info html Sys.localeconv html sys.parent html Sys.readlink html Sys.setenv html Sys.setFileTime html Sys.sleep html sys.source html Sys.time html Sys.which html system.file html system html system.time html system2 html t html table html tabulate html Tailcall html tapply html taskCallback html taskCallbackManager html taskCallbackNames html tempfile html textconnections html tilde html timezones html toString html trace html traceback html tracemem html transform html Trig html trimws html try html typeof html unique html units html unlink html unlist html unname html use html UseMethod html userhooks html utf8Conversion html UTF8filepaths html validUTF8 html vector html Vectorize html Version html warning html warnings html weekday.POSIXt html which.min html which html with html withVisible html write html writeLines html xtfrm html zapsmall html zMachine html zpackages html zScript html zutils html Signals html converting help for package 'tools' add_datalist html assertCondition html basetools html bibstyle html buildVignette html buildVignettes html charsets html check_packages_in_dir html checkFF html checkMD5sums html checkPoFiles html checkRd html checkRdaFiles html checkSHA256sums html checkTnF html checkVignettes html codoc html compactPDF html CRANtools html delimMatch html dependsOnPkgs html doitools html encoded html fileutils html find_gs_cmd html getVignetteInfo html HTMLheader html HTMLlinks html licensetools html loadRdMacros html make_translations_pkg html makeLazyLoading html makevars html matchConcordance html md5sum html package_dependencies html package_native_routine_registration_skeleton html parse_Rd html parseLatex html pkg2HTML html print.via.format html pskill html psnice html QC html R html Rcmd html Rd2HTML html Rd2txt_options html Rdiff html Rdindex html RdTextFilter html Rdutils html read.00Index html sha256sum html showNonASCII html startDynamicHelp html SweaveTeXFilter html testInstalledPackage html texi2dvi html toHTML html tools-defunct html tools-deprecated html tools-package html toRd html toTitleCase html undoc html update_pkg_po html updatePACKAGES html urltools html userdir html vignetteEngine html vignetteInfo html writePACKAGES html xgettext html converting help for package 'utils' adist html alarm html apropos html aregexec html arrangeWindows html askYesNo html aspell-utils html aspell html available.packages html BATCH html bibentry html bitstring html browseEnv html browseURL html browseVignettes html bug.report html capture.output html changedFiles html charClass html choose.dir html choose.files html chooseBioCmirror html chooseCRANmirror html citation html cite html citEntry html clipboard html close.socket html combn html compareVersion html COMPILE html contrib.url html count.fields html create.post html data html dataentry html debugcall html debugger html demo html DLL.version html download.file html download.packages html edit.data.frame html edit html example html file.edit html filetest html findCRANmirror html findLineNum html fix html flush.console html format html getAnywhere html getFromNamespace html getParseData html getS3method html getWindowsHandle html getWindowsHandles html glob2rx html globalVariables html hashtab html hasName html head html help html help.request html help.search html help.start html hsearch-utils html install.packages html INSTALL html installed.packages html isS3method html isS3stdGen html LINK html localeToCharset html ls_str html maintainer html make.packages.html html make.socket html memory.size html menu html methods html mirrorAdmin html modifyList html news html nsl html object.size html package.skeleton html packageDescription html packageName html packageStatus html page html person html personList html PkgUtils html process.events html prompt html promptData html promptPackage html Question html rcompgen html Rconsole html read.DIF html read.fortran html read.fwf html read.socket html read.table html readRegistry html recover html relist html remove.packages html REMOVE html removeSource html RHOME html roman html Rprof html Rprofmem html Rscript html RShowDoc html RSiteSearch html rtags html Rtangle html RweaveLatex html savehistory html select.list html sessionInfo html setRepositories html setWindowTitle html SHLIB html shortPathName html sourceutils html stack html str html strcapture html summaryRprof html Sweave html SweaveGetSourceName html SweaveSyntConv html SweaveUtils html tar html toLatex html txtProgressBar html type.convert html untar html unzip html update.packages html upgrade html url.show html URLencode html utils-defunct html utils-deprecated html utils-internal html utils-package html View html vignette html warnErrList html winDialog html winextras html winMenus html winProgressBar html write.table html zip html converting help for package 'grDevices' adjustcolor html as.graphicsAnnot html as.raster html axisTicks html boxplot.stats html bringToTop html cairo html cairoSymbolFont html check.options html chull html cm html col2rgb html colorRamp html colors html contourLines html convertColor html densCols html dev.capabilities html dev.capture html dev.flush html dev.interactive html dev html dev.size html dev2 html dev2bitmap html devAskNewPage html Devices html embedFonts html extendrange html getGraphicsEvent html glyphInfo html gray.colors html gray html grDevices-defunct html grDevices-internal html grDevices-package html grSoftVersion html hcl html Hershey html hsv html Japanese html make.rgb html msgWindow html n2mfrow html nclass html palette html palettes html pdf.options html pdf html pictex html plotmath html postscript html postscriptFonts html pretty.Date html ps.options html quartz html quartzFonts html recordGraphics html recordplot html rgb html rgb2hsv html trans3d html Type1Font html windows.options html windows html windowsFonts html x11 html x11Fonts html xy.coords html xyTable html xyz.coords html png html savePlot html converting help for package 'graphics' abline html arrows html assocplot html axis.POSIXct html axis html axTicks html barplot html box html boxplot.matrix html boxplot html bxp html cdplot html clip html contour html convertXY html coplot html curve html dotchart html filled.contour html fourfoldplot html frame html graphics-defunct html graphics-package html grid html hist.POSIXt html hist html identify html image html layout html legend html lines html locator html matplot html mosaicplot html mtext html pairs html panel.smooth html par html persp html pie html plot.dataframe html plot.default html plot.design html plot.factor html plot.formula html plot.raster html plot.table html plot.window html plot.xy html plothistogram html points html polygon html polypath html rasterImage html rect html rug html screen html segments html smoothScatter html spineplot html stars html stem html stripchart html strwidth html sunflowerplot html symbols html text html title html units html xspline html zAxis html converting help for package 'stats' acf html acf2AR html add1 html addmargins html aggregate html AIC html alias html anova.glm html anova.lm html anova.mlm html anova html ansari.test html aov html approxfun html ar.ols html ar html arima html arima.sim html arima0 html ARMAacf html ARMAtoMA html as.hclust html asOneSidedFormula html ave html bandwidth html bartlett.test html Beta html binom.test html Binomial html biplot.princomp html biplot html birthday html box.test html cancor html case.names html Cauchy html checkMFClasses html chisq.test html Chisquare html cmdscale html coef html complete.cases html confint html constrOptim html contrast html contrasts html convolve html cophenetic html cor html cor.test html cov.wt html cpgram html cutree html decompose html delete.response html dendrapply html dendrogram html density html deriv html deviance html df.residual html diffinv html dist html Distributions html dummy.coef html ecdf html eff.aovlist html effects html embed html expand.model.frame html Exponential html extractAIC html factanal html factor.scope html family html Fdist html fft html filter html fisher.test html fitted.values html fivenum html fligner.test html formula.nls html formula html free1way html friedman.test html ftable.formula html ftable html GammaDist html Geometric html getInitial html glm.control html glm html glm.summaries html hclust html heatmap html HoltWinters html Hypergeometric html identify.hclust html influence.measures html integrate html interaction.plot html IQR html is.empty html isoreg html KalmanLike html kernapply html kernel html kmeans html kruskal.test html ks.test html ksmooth html lag.plot html lag html line html listof html lm.influence html lm html lm.summaries html lmfit html loadings html loess.control html loess html Logistic html logLik html loglin html Lognormal html lowess html ls.diag html ls.print html lsfit html mad html mahalanobis html make.link html makepredictcall html manova html mantelhaen.test html mauchly.test html mcnemar.test html median html medpolish html model.extract html model.frame html model.matrix html model.tables html monthplot html mood.test html Multinom html na.action html na.contiguous html na.fail html nafns html naprint html NegBinomial html nextn html nlm html nlminb html nls.control html nls html NLSstAsymptotic html NLSstClosestX html NLSstLfAsymptote html NLSstRtAsymptote html nobs html Normal html numericDeriv html offset html oneway.test html optim html optimize html order.dendrogram html p.adjust html Pair html pairwise.prop.test html pairwise.t.test html pairwise.table html pairwise.wilcox.test html plot.acf html plot.density html plot.HoltWinters html plot.isoreg html plot.lm html plot.ppr html plot.profile.nls html plot.profile html plot.spec html plot.stepfun html plot.ts html Poisson html poisson.test html poly html power.anova.test html power.free1way.test html power.prop.test html power html power.t.test html pp.test html ppoints html ppplot html ppr html prcomp html predict.arima html predict.glm html predict.HoltWinters html predict.lm html predict.loess html predict.nls html predict html predict.smooth.spline html preplot html princomp html print.power.htest html print.ts html printCoefmat html profile.glm html profile.nls html profile html proj html prop.test html prop.trend.test html qqnorm html quade.test html quantile html r2dtable html read.ftable html rect.hclust html relevel html reorder.dendrogram html reorder.factor html replications html reshape html residuals html runmed html rWishart html scatter.smooth html screeplot html sd html se.contrast html selfStart html setNames html shapiro.test html sigma html SignRank html simulate html Smirnov html smooth html smooth.spline html smoothEnds html sortedXyData html spec.ar html spec.pgram html spec.taper html spectrum html splinefun html SSasymp html SSasympOff html SSasympOrig html SSbiexp html SSD html SSfol html SSfpl html SSgompertz html SSlogis html SSmicmen html SSweibull html start html stat.anova html stats-defunct html stats-deprecated html stats-package html step html stepfun html stl html stlmethods html StructTS html summary.aov html summary.glm html summary.lm html summary.manova html summary.nls html summary.princomp html supsmu html symnum html t.test html TDist html termplot html terms.formula html terms.object html terms html time html toeplitz html ts-methods html ts.plot html ts html ts.union html tsdiag html tsp html tsSmooth html Tukey html TukeyHSD html Uniform html uniroot html update.formula html update html var.test html varimax html vcov html Weibull html weighted.mean html weighted.residuals html weights html wilcox.test html Wilcoxon html window html xtabs html zC html converting help for package 'datasets' ability.cov html airmiles html AirPassengers html airquality html anscombe html attenu html attitude html austres html beavers html BJsales html BOD html cars html ChickWeight html chickwts html co2 html crimtab html datasets-package html discoveries html DNase html esoph html euro html eurodist html EuStockMarkets html faithful html Formaldehyde html freeny html gait html HairEyeColor html Harman23.cor html Harman74.cor html Indometh html infert html InsectSprays html iris html islands html JohnsonJohnson html LakeHuron html lh html LifeCycleSavings html Loblolly html longley html lynx html morley html mtcars html nhtemp html Nile html nottem html npk html occupationalStatus html Orange html OrchardSprays html penguins html PlantGrowth html precip html presidents html pressure html Puromycin html quakes html randu html rivers html rock html sleep html stackloss html state html sunspot.month html sunspot.year html sunspots html swiss html Theoph html Titanic html ToothGrowth html treering html trees html UCBAdmissions html UKDriverDeaths html UKgas html UKLungDeaths html USAccDeaths html USArrests html USJudgeRatings html USPersonalExpenditure html uspop html VADeaths html volcano html warpbreaks html women html WorldPhones html WWWusage html zCO2 html converting help for package 'methods' as html BasicClasses html callGeneric html canCoerce html cbind2 html Classes_Details html Classes html classesToAM html className html classRepresentation-class html Documentation html dotsMethods html EmptyMethodsList-class html EnvironmentClass html evalSource html findClass html findMethods html fixPrevious html genericFunction-class html GenericFunctions html getClass html getMethod html getPackageName html hasArg html implicitGeneric html inheritedSlotNames html initialize-methods html Introduction html is html isSealedMethod html LanguageClasses html languageEl html LinearMethodsList-class html loadMethod html localRefClass html method.skeleton html MethodDefinition-class html Methods_Details html Methods_for_Nongenerics html Methods_for_S3 html methods-defunct html methods-deprecated html methods-package html Methods html MethodSupport html methodUtilities html MethodWithNext-class html new html NextMethod html nonStructure-class html ObjectsWithPackage-class html promptClass html promptMethods html RClassUtils html refClass html removeMethod html representation html RMethodUtils html S3Part html S4groupGeneric html SClassExtension-class html selectSuperClasses html setAs html setClass html setClassUnion html setGeneric html setGroupGeneric html setIs html setLoadActions html setMethod html setOldClass html setSClass html show html showMethods html signature-class html slot html stdRefClass html StructureClasses html substituteDirect html testInheritedMethods html TraceClasses html validObject html zBasicFunsList html converting help for package 'grid' absolute.size html arrow html as.mask html calcStringMetric html current.viewport html dataViewport html depth html deviceLoc html drawDetails html editDetails html editViewport html explode html gEdit html getNames html gpar html gPath html grid-defunct html grid-internal html grid-package html grid.add html grid.bezier html grid.cap html grid.circle html grid.clip html grid.convert html grid.copy html grid.curve html grid.delay html grid.display.list html grid.DLapply html grid.draw html grid.edit html grid.force html grid.frame html grid.function html grid.get html grid.glyph html grid.grab html grid.grep html grid.grill html grid.grob html grid.group html grid.layout html grid.lines html grid.locator html grid.ls html grid.move.to html grid.newpage html grid.null html grid.pack html grid.path html grid.place html grid.plot.and.legend html grid.points html grid.polygon html grid.pretty html grid.raster html Grid html grid.record html grid.rect html grid.refresh html grid.remove html grid.reorder html grid.roundrect html grid.segments html grid.set html grid.show.layout html grid.show.viewport html grid.stroke html grid.text html grid.xaxis html grid.xspline html grid.yaxis html gridCoords html grobCoords html grobName html grobWidth html grobX html legendGrob html makeContent html patterns html plotViewport html resolveRasterSize html showGrob html showViewport html stringWidth html unit.c html unit.length html unit.pmin html unit html unit.rep html unitType html valid.just html validDetails html viewport html viewports html viewportTransform html vpPath html widthDetails html xDetails html xsplinePoints html converting help for package 'splines' asVector html backSpline html bs html interpSpline html ns html periodicSpline html polySpline html predict.bs html predict.bSpline html splineDesign html splineKnots html splineOrder html splines-package html xyVector html converting help for package 'stats4' coef-methods html confint-methods html logLik-methods html mle-class html mle html plot-methods html profile-methods html profile.mle-class html show-methods html stats4-package html summary-methods html summary.mle-class html update-methods html vcov-methods html converting help for package 'tcltk' TclInterface html tclServiceMode html tcltk-defunct html tcltk-package html tk_choose.dir html tk_choose.files html tk_messageBox html tk_select.list html TkCommands html tkpager html tkProgressBar html tkStartGUI html TkWidgetcmds html TkWidgets html converting help for package 'compiler' compile html converting help for package 'parallel' clusterApply html detectCores html makeCluster html parallel-package html RngStream html sendData html splitIndices html children html mcaffinity html mcfork html mclapply html mcparallel html pvec html make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/Recommended' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library/Recommended' begin installing recommended package MASS * installing *source* package ‘MASS’ ... ** this is package ‘MASS’ version ‘7.3-66’ ** package ‘MASS’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/Rtmp1cXH58/R.INSTALL45992c5b32a0/MASS/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c MASS.c -o MASS.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lqs.c -o lqs.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o MASS.so MASS.o lqs.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/Rtmp1cXH58/R.INSTALL45992c5b32a0/MASS/src' installing to /builddir/build/BUILD/R-4.6.2/library/MASS/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘MASS’ finding HTML links ... done Aids2 html Animals html Boston html Cars93 html Cushings html DDT html GAGurine html Insurance html MASS-internal html Melanoma html Null html OME html Pima.tr html Rabbit html Rubber html SP500 html Sitka html Sitka89 html Skye html Traffic html UScereal html UScrime html VA html abbey html accdeaths html addterm html anorexia html anova.negbin html area html bacteria html bandwidth.nrd html bcv html beav1 html beav2 html biopsy html birthwt html boxcox html cabbages html caith html cats html cement html chem html con2tr html confint html contr.sdif html coop html corresp html cov.rob html cov.trob html cpus html crabs html deaths html denumerate html dose.p html drivers html dropterm html eagles html epil html eqscplot html farms html fgl html fitdistr html forbes html fractions html galaxies html gamma.dispersion html gamma.shape.glm html gehan html genotype html geyser html gilgais html ginv html glm.convert html glm.nb html glmmPQL html hills html hist.scott html housing html huber html hubers html immer html isoMDS html kde2d html lda html ldahist html leuk html lm.gls html lm.ridge html loglm html loglm1 html logtrans html lqs html mammals html mca html mcycle html menarche html michelson html minn38 html motors html muscle html mvrnorm html negative.binomial html newcomb html nlschools html npk html npr1 html oats html painters html pairs.lda html parcoord html petrol html phones html plot.lda html plot.mca html polr html predict.glmmPQL html predict.lda html predict.lqs html predict.mca html predict.qda html profile.glm html qda html quine html rational html renumerate html rlm html rms.curv html rnegbin html road html rotifer html sammon html ships html shoes html shrimp html shuttle html snails html stdres html steam html stepAIC html stormer html studres html summary.loglm html summary.negbin html summary.rlm html survey html synth.tr html theta.md html topo html truehist html ucv html waders html whiteside html width.SJ html write.matrix html wtloss html ** building package indices ** testing if installed package can be loaded * DONE (MASS) Making 'packages.html' ... done begin installing recommended package lattice * installing *source* package ‘lattice’ ... ** this is package ‘lattice’ version ‘0.23-1’ ** package ‘lattice’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/Rtmp6eIg5Y/R.INSTALL45d47531e1ff/lattice/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c threeDplot.c -o threeDplot.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o lattice.so init.o threeDplot.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/Rtmp6eIg5Y/R.INSTALL45d47531e1ff/lattice/src' installing to /builddir/build/BUILD/R-4.6.2/library/lattice/libs ** R ** data *** moving datasets to lazyload DB ** demo ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘lattice’ finding HTML links ... done Lattice html Rows html USMortality html axis.default html banking html barchart.table html barley html cloud html draw.colorkey html draw.key html environmental html ethanol html histogram html interaction html lattice.options html latticeParseFormula html level.colors html levelplot html llines html lset html make.groups html melanoma html oneway html packet.panel.default html panel.axis html panel.barchart html panel.bwplot html panel.cloud html panel.densityplot html panel.dotplot html panel.functions html panel.histogram html panel.levelplot html panel.loess html panel.number html panel.pairs html panel.parallel html panel.qqmath html panel.qqmathline html panel.smoothScatter html panel.spline html panel.stripplot html panel.superpose html panel.violin html panel.xyplot html prepanel.default html prepanel.functions html print.trellis html qq html qqmath html rfs html shingles html simpleKey html simpleTheme html singer html splom html standard.theme html strip.default html tmd html trellis.device html trellis.object html trellis.par.get html update.trellis html utilities.3d html xyplot html xyplot.ts html *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (lattice) Making 'packages.html' ... done begin installing recommended package Matrix * installing *source* package ‘Matrix’ ... ** this is package ‘Matrix’ version ‘1.7-6’ ** package ‘Matrix’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Csparse.c -o Csparse.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c attrib.c -o attrib.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bind.c -o bind.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cholmod-common.c -o cholmod-common.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cholmod-etc.c -o cholmod-etc.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coerce.c -o coerce.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cs-etc.c -o cs-etc.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dense.c -o dense.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c determinant.c -o determinant.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c expm.c -o expm.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c factor.c -o factor.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c idz.c -o idz.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c kappa.c -o kappa.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c matmult.c -o matmult.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c objects.c -o objects.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c perm.c -o perm.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c solve.c -o solve.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sparse.c -o sparse.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c subassign.c -o subassign.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c subscript.c -o subscript.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c utils-R.c -o utils-R.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c utils.c -o utils.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c validity.c -o validity.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I"SuiteSparse/SuiteSparse_config" -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c vector.c -o vector.o cd SuiteSparse/CHOLMOD && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CHOLMOD' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_check.c -o Check/cholmod_check.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_l_check.c -o Check/cholmod_l_check.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_read.c -o Check/cholmod_read.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_l_read.c -o Check/cholmod_l_read.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_write.c -o Check/cholmod_write.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Check/cholmod_l_write.c -o Check/cholmod_l_write.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_amd.c -o Cholesky/cholmod_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_amd.c -o Cholesky/cholmod_l_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_analyze.c -o Cholesky/cholmod_analyze.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_analyze.c -o Cholesky/cholmod_l_analyze.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_colamd.c -o Cholesky/cholmod_colamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_colamd.c -o Cholesky/cholmod_l_colamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_etree.c -o Cholesky/cholmod_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_etree.c -o Cholesky/cholmod_l_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_factorize.c -o Cholesky/cholmod_factorize.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_factorize.c -o Cholesky/cholmod_l_factorize.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_postorder.c -o Cholesky/cholmod_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_postorder.c -o Cholesky/cholmod_l_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_rcond.c -o Cholesky/cholmod_rcond.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rcond.c -o Cholesky/cholmod_l_rcond.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_resymbol.c -o Cholesky/cholmod_resymbol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_resymbol.c -o Cholesky/cholmod_l_resymbol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_rowcolcounts.c -o Cholesky/cholmod_rowcolcounts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rowcolcounts.c -o Cholesky/cholmod_l_rowcolcounts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_rowfac.c -o Cholesky/cholmod_rowfac.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_rowfac.c -o Cholesky/cholmod_l_rowfac.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_solve.c -o Cholesky/cholmod_solve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_solve.c -o Cholesky/cholmod_l_solve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_spsolve.c -o Cholesky/cholmod_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Cholesky/cholmod_l_spsolve.c -o Cholesky/cholmod_l_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_aat.c -o Utility/cholmod_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_aat.c -o Utility/cholmod_l_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_add.c -o Utility/cholmod_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_add.c -o Utility/cholmod_l_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_add_size_t.c -o Utility/cholmod_add_size_t.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_add_size_t.c -o Utility/cholmod_l_add_size_t.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_alloc_factor.c -o Utility/cholmod_alloc_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_alloc_factor.c -o Utility/cholmod_l_alloc_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_alloc_work.c -o Utility/cholmod_alloc_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_alloc_work.c -o Utility/cholmod_l_alloc_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_allocate_dense.c -o Utility/cholmod_allocate_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_dense.c -o Utility/cholmod_l_allocate_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_allocate_factor.c -o Utility/cholmod_allocate_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_factor.c -o Utility/cholmod_l_allocate_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_allocate_sparse.c -o Utility/cholmod_allocate_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_sparse.c -o Utility/cholmod_l_allocate_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_allocate_triplet.c -o Utility/cholmod_allocate_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_triplet.c -o Utility/cholmod_l_allocate_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_allocate_work.c -o Utility/cholmod_allocate_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_allocate_work.c -o Utility/cholmod_l_allocate_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_band.c -o Utility/cholmod_band.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_band.c -o Utility/cholmod_l_band.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_band_nnz.c -o Utility/cholmod_band_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_band_nnz.c -o Utility/cholmod_l_band_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_calloc.c -o Utility/cholmod_calloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_calloc.c -o Utility/cholmod_l_calloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_change_factor.c -o Utility/cholmod_change_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_change_factor.c -o Utility/cholmod_l_change_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_clear_flag.c -o Utility/cholmod_clear_flag.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_clear_flag.c -o Utility/cholmod_l_clear_flag.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy.c -o Utility/cholmod_copy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy.c -o Utility/cholmod_l_copy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy_dense.c -o Utility/cholmod_copy_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_dense.c -o Utility/cholmod_l_copy_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy_dense2.c -o Utility/cholmod_copy_dense2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_dense2.c -o Utility/cholmod_l_copy_dense2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy_factor.c -o Utility/cholmod_copy_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_factor.c -o Utility/cholmod_l_copy_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy_sparse.c -o Utility/cholmod_copy_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_sparse.c -o Utility/cholmod_l_copy_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_copy_triplet.c -o Utility/cholmod_copy_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_copy_triplet.c -o Utility/cholmod_l_copy_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_cumsum.c -o Utility/cholmod_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_cumsum.c -o Utility/cholmod_l_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_dbound.c -o Utility/cholmod_dbound.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_dbound.c -o Utility/cholmod_l_dbound.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_defaults.c -o Utility/cholmod_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_defaults.c -o Utility/cholmod_l_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_dense_nnz.c -o Utility/cholmod_dense_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_dense_nnz.c -o Utility/cholmod_l_dense_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_dense_to_sparse.c -o Utility/cholmod_dense_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_dense_to_sparse.c -o Utility/cholmod_l_dense_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_divcomplex.c -o Utility/cholmod_divcomplex.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_divcomplex.c -o Utility/cholmod_l_divcomplex.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_ensure_dense.c -o Utility/cholmod_ensure_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_ensure_dense.c -o Utility/cholmod_l_ensure_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_error.c -o Utility/cholmod_error.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_error.c -o Utility/cholmod_l_error.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_eye.c -o Utility/cholmod_eye.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_eye.c -o Utility/cholmod_l_eye.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_factor_to_sparse.c -o Utility/cholmod_factor_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_factor_to_sparse.c -o Utility/cholmod_l_factor_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_finish.c -o Utility/cholmod_finish.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_finish.c -o Utility/cholmod_l_finish.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free.c -o Utility/cholmod_free.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free.c -o Utility/cholmod_l_free.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free_dense.c -o Utility/cholmod_free_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free_dense.c -o Utility/cholmod_l_free_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free_factor.c -o Utility/cholmod_free_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free_factor.c -o Utility/cholmod_l_free_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free_sparse.c -o Utility/cholmod_free_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free_sparse.c -o Utility/cholmod_l_free_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free_triplet.c -o Utility/cholmod_free_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free_triplet.c -o Utility/cholmod_l_free_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_free_work.c -o Utility/cholmod_free_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_free_work.c -o Utility/cholmod_l_free_work.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_hypot.c -o Utility/cholmod_hypot.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_hypot.c -o Utility/cholmod_l_hypot.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_malloc.c -o Utility/cholmod_malloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_malloc.c -o Utility/cholmod_l_malloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_maxrank.c -o Utility/cholmod_maxrank.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_maxrank.c -o Utility/cholmod_l_maxrank.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_memdebug.c -o Utility/cholmod_memdebug.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_mult_size_t.c -o Utility/cholmod_mult_size_t.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_mult_size_t.c -o Utility/cholmod_l_mult_size_t.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_mult_uint64_t.c -o Utility/cholmod_mult_uint64_t.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_nnz.c -o Utility/cholmod_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_nnz.c -o Utility/cholmod_l_nnz.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_ones.c -o Utility/cholmod_ones.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_ones.c -o Utility/cholmod_l_ones.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_pack_factor.c -o Utility/cholmod_pack_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_pack_factor.c -o Utility/cholmod_l_pack_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_ptranspose.c -o Utility/cholmod_ptranspose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_ptranspose.c -o Utility/cholmod_l_ptranspose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_realloc.c -o Utility/cholmod_realloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_realloc.c -o Utility/cholmod_l_realloc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_realloc_multiple.c -o Utility/cholmod_realloc_multiple.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_realloc_multiple.c -o Utility/cholmod_l_realloc_multiple.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_column.c -o Utility/cholmod_reallocate_column.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_column.c -o Utility/cholmod_l_reallocate_column.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_factor.c -o Utility/cholmod_reallocate_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_factor.c -o Utility/cholmod_l_reallocate_factor.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_sparse.c -o Utility/cholmod_reallocate_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_sparse.c -o Utility/cholmod_l_reallocate_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_reallocate_triplet.c -o Utility/cholmod_reallocate_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_reallocate_triplet.c -o Utility/cholmod_l_reallocate_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_sbound.c -o Utility/cholmod_sbound.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_sbound.c -o Utility/cholmod_l_sbound.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_score_comp.c -o Utility/cholmod_score_comp.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_score_comp.c -o Utility/cholmod_l_score_comp.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_set_empty.c -o Utility/cholmod_set_empty.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_set_empty.c -o Utility/cholmod_l_set_empty.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_sort.c -o Utility/cholmod_sort.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_sort.c -o Utility/cholmod_l_sort.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_sparse_to_dense.c -o Utility/cholmod_sparse_to_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_sparse_to_dense.c -o Utility/cholmod_l_sparse_to_dense.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_sparse_to_triplet.c -o Utility/cholmod_sparse_to_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_sparse_to_triplet.c -o Utility/cholmod_l_sparse_to_triplet.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_speye.c -o Utility/cholmod_speye.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_speye.c -o Utility/cholmod_l_speye.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_spzeros.c -o Utility/cholmod_spzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_spzeros.c -o Utility/cholmod_l_spzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_start.c -o Utility/cholmod_start.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_start.c -o Utility/cholmod_l_start.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_transpose.c -o Utility/cholmod_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose.c -o Utility/cholmod_l_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_transpose_sym.c -o Utility/cholmod_transpose_sym.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose_sym.c -o Utility/cholmod_l_transpose_sym.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_transpose_unsym.c -o Utility/cholmod_transpose_unsym.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_transpose_unsym.c -o Utility/cholmod_l_transpose_unsym.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_triplet_to_sparse.c -o Utility/cholmod_triplet_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_triplet_to_sparse.c -o Utility/cholmod_l_triplet_to_sparse.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_version.c -o Utility/cholmod_version.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_version.c -o Utility/cholmod_l_version.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_xtype.c -o Utility/cholmod_xtype.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_xtype.c -o Utility/cholmod_l_xtype.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_zeros.c -o Utility/cholmod_zeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Utility/cholmod_l_zeros.c -o Utility/cholmod_l_zeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_drop.c -o MatrixOps/cholmod_drop.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_drop.c -o MatrixOps/cholmod_l_drop.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_horzcat.c -o MatrixOps/cholmod_horzcat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_horzcat.c -o MatrixOps/cholmod_l_horzcat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_norm.c -o MatrixOps/cholmod_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_norm.c -o MatrixOps/cholmod_l_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_scale.c -o MatrixOps/cholmod_scale.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_scale.c -o MatrixOps/cholmod_l_scale.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_sdmult.c -o MatrixOps/cholmod_sdmult.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_sdmult.c -o MatrixOps/cholmod_l_sdmult.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_ssmult.c -o MatrixOps/cholmod_ssmult.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_ssmult.c -o MatrixOps/cholmod_l_ssmult.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_submatrix.c -o MatrixOps/cholmod_submatrix.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_submatrix.c -o MatrixOps/cholmod_l_submatrix.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_symmetry.c -o MatrixOps/cholmod_symmetry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_symmetry.c -o MatrixOps/cholmod_l_symmetry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_vertcat.c -o MatrixOps/cholmod_vertcat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c MatrixOps/cholmod_l_vertcat.c -o MatrixOps/cholmod_l_vertcat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_rowadd.c -o Modify/cholmod_rowadd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_l_rowadd.c -o Modify/cholmod_l_rowadd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_rowdel.c -o Modify/cholmod_rowdel.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_l_rowdel.c -o Modify/cholmod_l_rowdel.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_updown.c -o Modify/cholmod_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Modify/cholmod_l_updown.c -o Modify/cholmod_l_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_camd.c -o Partition/cholmod_camd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_l_camd.c -o Partition/cholmod_l_camd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_ccolamd.c -o Partition/cholmod_ccolamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_l_ccolamd.c -o Partition/cholmod_l_ccolamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_csymamd.c -o Partition/cholmod_csymamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_l_csymamd.c -o Partition/cholmod_l_csymamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_metis.c -o Partition/cholmod_metis.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_l_metis.c -o Partition/cholmod_l_metis.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_metis_wrapper.c -o Partition/cholmod_metis_wrapper.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_nesdis.c -o Partition/cholmod_nesdis.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Partition/cholmod_l_nesdis.c -o Partition/cholmod_l_nesdis.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_super_numeric.c -o Supernodal/cholmod_super_numeric.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_numeric.c -o Supernodal/cholmod_l_super_numeric.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_super_solve.c -o Supernodal/cholmod_super_solve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_solve.c -o Supernodal/cholmod_l_super_solve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_super_symbolic.c -o Supernodal/cholmod_super_symbolic.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I../AMD/Include -I../COLAMD/Include -I../CAMD/Include -I../CCOLAMD/Include -I. -I./SuiteSparse_metis/include -I./SuiteSparse_metis/GKlib -I./SuiteSparse_metis/libmetis -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Supernodal/cholmod_l_super_symbolic.c -o Supernodal/cholmod_l_super_symbolic.o rm -f CHOLMOD.a ar -cr CHOLMOD.a Check/cholmod_check.o Check/cholmod_l_check.o Check/cholmod_read.o Check/cholmod_l_read.o Check/cholmod_write.o Check/cholmod_l_write.o Cholesky/cholmod_amd.o Cholesky/cholmod_l_amd.o Cholesky/cholmod_analyze.o Cholesky/cholmod_l_analyze.o Cholesky/cholmod_colamd.o Cholesky/cholmod_l_colamd.o Cholesky/cholmod_etree.o Cholesky/cholmod_l_etree.o Cholesky/cholmod_factorize.o Cholesky/cholmod_l_factorize.o Cholesky/cholmod_postorder.o Cholesky/cholmod_l_postorder.o Cholesky/cholmod_rcond.o Cholesky/cholmod_l_rcond.o Cholesky/cholmod_resymbol.o Cholesky/cholmod_l_resymbol.o Cholesky/cholmod_rowcolcounts.o Cholesky/cholmod_l_rowcolcounts.o Cholesky/cholmod_rowfac.o Cholesky/cholmod_l_rowfac.o Cholesky/cholmod_solve.o Cholesky/cholmod_l_solve.o Cholesky/cholmod_spsolve.o Cholesky/cholmod_l_spsolve.o Utility/cholmod_aat.o Utility/cholmod_l_aat.o Utility/cholmod_add.o Utility/cholmod_l_add.o Utility/cholmod_add_size_t.o Utility/cholmod_l_add_size_t.o Utility/cholmod_alloc_factor.o Utility/cholmod_l_alloc_factor.o Utility/cholmod_alloc_work.o Utility/cholmod_l_alloc_work.o Utility/cholmod_allocate_dense.o Utility/cholmod_l_allocate_dense.o Utility/cholmod_allocate_factor.o Utility/cholmod_l_allocate_factor.o Utility/cholmod_allocate_sparse.o Utility/cholmod_l_allocate_sparse.o Utility/cholmod_allocate_triplet.o Utility/cholmod_l_allocate_triplet.o Utility/cholmod_allocate_work.o Utility/cholmod_l_allocate_work.o Utility/cholmod_band.o Utility/cholmod_l_band.o Utility/cholmod_band_nnz.o Utility/cholmod_l_band_nnz.o Utility/cholmod_calloc.o Utility/cholmod_l_calloc.o Utility/cholmod_change_factor.o Utility/cholmod_l_change_factor.o Utility/cholmod_clear_flag.o Utility/cholmod_l_clear_flag.o Utility/cholmod_copy.o Utility/cholmod_l_copy.o Utility/cholmod_copy_dense.o Utility/cholmod_l_copy_dense.o Utility/cholmod_copy_dense2.o Utility/cholmod_l_copy_dense2.o Utility/cholmod_copy_factor.o Utility/cholmod_l_copy_factor.o Utility/cholmod_copy_sparse.o Utility/cholmod_l_copy_sparse.o Utility/cholmod_copy_triplet.o Utility/cholmod_l_copy_triplet.o Utility/cholmod_cumsum.o Utility/cholmod_l_cumsum.o Utility/cholmod_dbound.o Utility/cholmod_l_dbound.o Utility/cholmod_defaults.o Utility/cholmod_l_defaults.o Utility/cholmod_dense_nnz.o Utility/cholmod_l_dense_nnz.o Utility/cholmod_dense_to_sparse.o Utility/cholmod_l_dense_to_sparse.o Utility/cholmod_divcomplex.o Utility/cholmod_l_divcomplex.o Utility/cholmod_ensure_dense.o Utility/cholmod_l_ensure_dense.o Utility/cholmod_error.o Utility/cholmod_l_error.o Utility/cholmod_eye.o Utility/cholmod_l_eye.o Utility/cholmod_factor_to_sparse.o Utility/cholmod_l_factor_to_sparse.o Utility/cholmod_finish.o Utility/cholmod_l_finish.o Utility/cholmod_free.o Utility/cholmod_l_free.o Utility/cholmod_free_dense.o Utility/cholmod_l_free_dense.o Utility/cholmod_free_factor.o Utility/cholmod_l_free_factor.o Utility/cholmod_free_sparse.o Utility/cholmod_l_free_sparse.o Utility/cholmod_free_triplet.o Utility/cholmod_l_free_triplet.o Utility/cholmod_free_work.o Utility/cholmod_l_free_work.o Utility/cholmod_hypot.o Utility/cholmod_l_hypot.o Utility/cholmod_malloc.o Utility/cholmod_l_malloc.o Utility/cholmod_maxrank.o Utility/cholmod_l_maxrank.o Utility/cholmod_memdebug.o Utility/cholmod_mult_size_t.o Utility/cholmod_l_mult_size_t.o Utility/cholmod_mult_uint64_t.o Utility/cholmod_nnz.o Utility/cholmod_l_nnz.o Utility/cholmod_ones.o Utility/cholmod_l_ones.o Utility/cholmod_pack_factor.o Utility/cholmod_l_pack_factor.o Utility/cholmod_ptranspose.o Utility/cholmod_l_ptranspose.o Utility/cholmod_realloc.o Utility/cholmod_l_realloc.o Utility/cholmod_realloc_multiple.o Utility/cholmod_l_realloc_multiple.o Utility/cholmod_reallocate_column.o Utility/cholmod_l_reallocate_column.o Utility/cholmod_reallocate_factor.o Utility/cholmod_l_reallocate_factor.o Utility/cholmod_reallocate_sparse.o Utility/cholmod_l_reallocate_sparse.o Utility/cholmod_reallocate_triplet.o Utility/cholmod_l_reallocate_triplet.o Utility/cholmod_sbound.o Utility/cholmod_l_sbound.o Utility/cholmod_score_comp.o Utility/cholmod_l_score_comp.o Utility/cholmod_set_empty.o Utility/cholmod_l_set_empty.o Utility/cholmod_sort.o Utility/cholmod_l_sort.o Utility/cholmod_sparse_to_dense.o Utility/cholmod_l_sparse_to_dense.o Utility/cholmod_sparse_to_triplet.o Utility/cholmod_l_sparse_to_triplet.o Utility/cholmod_speye.o Utility/cholmod_l_speye.o Utility/cholmod_spzeros.o Utility/cholmod_l_spzeros.o Utility/cholmod_start.o Utility/cholmod_l_start.o Utility/cholmod_transpose.o Utility/cholmod_l_transpose.o Utility/cholmod_transpose_sym.o Utility/cholmod_l_transpose_sym.o Utility/cholmod_transpose_unsym.o Utility/cholmod_l_transpose_unsym.o Utility/cholmod_triplet_to_sparse.o Utility/cholmod_l_triplet_to_sparse.o Utility/cholmod_version.o Utility/cholmod_l_version.o Utility/cholmod_xtype.o Utility/cholmod_l_xtype.o Utility/cholmod_zeros.o Utility/cholmod_l_zeros.o MatrixOps/cholmod_drop.o MatrixOps/cholmod_l_drop.o MatrixOps/cholmod_horzcat.o MatrixOps/cholmod_l_horzcat.o MatrixOps/cholmod_norm.o MatrixOps/cholmod_l_norm.o MatrixOps/cholmod_scale.o MatrixOps/cholmod_l_scale.o MatrixOps/cholmod_sdmult.o MatrixOps/cholmod_l_sdmult.o MatrixOps/cholmod_ssmult.o MatrixOps/cholmod_l_ssmult.o MatrixOps/cholmod_submatrix.o MatrixOps/cholmod_l_submatrix.o MatrixOps/cholmod_symmetry.o MatrixOps/cholmod_l_symmetry.o MatrixOps/cholmod_vertcat.o MatrixOps/cholmod_l_vertcat.o Modify/cholmod_rowadd.o Modify/cholmod_l_rowadd.o Modify/cholmod_rowdel.o Modify/cholmod_l_rowdel.o Modify/cholmod_updown.o Modify/cholmod_l_updown.o Partition/cholmod_camd.o Partition/cholmod_l_camd.o Partition/cholmod_ccolamd.o Partition/cholmod_l_ccolamd.o Partition/cholmod_csymamd.o Partition/cholmod_l_csymamd.o Partition/cholmod_metis.o Partition/cholmod_l_metis.o Partition/cholmod_metis_wrapper.o Partition/cholmod_nesdis.o Partition/cholmod_l_nesdis.o Supernodal/cholmod_super_numeric.o Supernodal/cholmod_l_super_numeric.o Supernodal/cholmod_super_solve.o Supernodal/cholmod_l_super_solve.o Supernodal/cholmod_super_symbolic.o Supernodal/cholmod_l_super_symbolic.o ranlib CHOLMOD.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CHOLMOD' cd SuiteSparse/CCOLAMD && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CCOLAMD' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/ccolamd.c -o Source/ccolamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/ccolamd_l.c -o Source/ccolamd_l.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/ccolamd_version.c -o Source/ccolamd_version.o rm -f CCOLAMD.a ar -cr CCOLAMD.a Source/ccolamd.o Source/ccolamd_l.o Source/ccolamd_version.o ranlib CCOLAMD.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CCOLAMD' cd SuiteSparse/CAMD && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CAMD' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_1.c -o Source/camd_1.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l1.c -o Source/camd_l1.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_2.c -o Source/camd_2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l2.c -o Source/camd_l2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_aat.c -o Source/camd_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_aat.c -o Source/camd_l_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_control.c -o Source/camd_control.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_control.c -o Source/camd_l_control.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_defaults.c -o Source/camd_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_defaults.c -o Source/camd_l_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_dump.c -o Source/camd_dump.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_dump.c -o Source/camd_l_dump.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_info.c -o Source/camd_info.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_info.c -o Source/camd_l_info.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_order.c -o Source/camd_order.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_order.c -o Source/camd_l_order.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_postorder.c -o Source/camd_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_postorder.c -o Source/camd_l_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_preprocess.c -o Source/camd_preprocess.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_preprocess.c -o Source/camd_l_preprocess.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_valid.c -o Source/camd_valid.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_l_valid.c -o Source/camd_l_valid.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/camd_version.c -o Source/camd_version.o rm -f CAMD.a ar -cr CAMD.a Source/camd_1.o Source/camd_l1.o Source/camd_2.o Source/camd_l2.o Source/camd_aat.o Source/camd_l_aat.o Source/camd_control.o Source/camd_l_control.o Source/camd_defaults.o Source/camd_l_defaults.o Source/camd_dump.o Source/camd_l_dump.o Source/camd_info.o Source/camd_l_info.o Source/camd_order.o Source/camd_l_order.o Source/camd_postorder.o Source/camd_l_postorder.o Source/camd_preprocess.o Source/camd_l_preprocess.o Source/camd_valid.o Source/camd_l_valid.o Source/camd_version.o ranlib CAMD.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CAMD' cd SuiteSparse/COLAMD && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/COLAMD' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/colamd.c -o Source/colamd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/colamd_l.c -o Source/colamd_l.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/colamd_version.c -o Source/colamd_version.o rm -f COLAMD.a ar -cr COLAMD.a Source/colamd.o Source/colamd_l.o Source/colamd_version.o ranlib COLAMD.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/COLAMD' cd SuiteSparse/AMD && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/AMD' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_1.c -o Source/amd_1.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l1.c -o Source/amd_l1.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_2.c -o Source/amd_2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l2.c -o Source/amd_l2.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_aat.c -o Source/amd_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_aat.c -o Source/amd_l_aat.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_control.c -o Source/amd_control.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_control.c -o Source/amd_l_control.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_defaults.c -o Source/amd_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_defaults.c -o Source/amd_l_defaults.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_dump.c -o Source/amd_dump.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_dump.c -o Source/amd_l_dump.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_info.c -o Source/amd_info.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_info.c -o Source/amd_l_info.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_order.c -o Source/amd_order.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_order.c -o Source/amd_l_order.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_post_tree.c -o Source/amd_post_tree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_post_tree.c -o Source/amd_l_post_tree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_postorder.c -o Source/amd_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_postorder.c -o Source/amd_l_postorder.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_preprocess.c -o Source/amd_preprocess.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_preprocess.c -o Source/amd_l_preprocess.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_valid.c -o Source/amd_valid.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_l_valid.c -o Source/amd_l_valid.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/amd_version.c -o Source/amd_version.o rm -f AMD.a ar -cr AMD.a Source/amd_1.o Source/amd_l1.o Source/amd_2.o Source/amd_l2.o Source/amd_aat.o Source/amd_l_aat.o Source/amd_control.o Source/amd_l_control.o Source/amd_defaults.o Source/amd_l_defaults.o Source/amd_dump.o Source/amd_l_dump.o Source/amd_info.o Source/amd_l_info.o Source/amd_order.o Source/amd_l_order.o Source/amd_post_tree.o Source/amd_l_post_tree.o Source/amd_postorder.o Source/amd_l_postorder.o Source/amd_preprocess.o Source/amd_l_preprocess.o Source/amd_valid.o Source/amd_l_valid.o Source/amd_version.o ranlib AMD.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/AMD' cd SuiteSparse/CXSparse && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CXSparse' gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_add.c -o Source/cs_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_add.c -o Source/cs_dl_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_add.c -o Source/cs_ci_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_add.c -o Source/cs_cl_add.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_amd.c -o Source/cs_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_amd.c -o Source/cs_dl_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_amd.c -o Source/cs_ci_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_amd.c -o Source/cs_cl_amd.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_chol.c -o Source/cs_chol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_chol.c -o Source/cs_dl_chol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_chol.c -o Source/cs_ci_chol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_chol.c -o Source/cs_cl_chol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cholsol.c -o Source/cs_cholsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_cholsol.c -o Source/cs_dl_cholsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_cholsol.c -o Source/cs_ci_cholsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_cholsol.c -o Source/cs_cl_cholsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_compress.c -o Source/cs_compress.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_compress.c -o Source/cs_dl_compress.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_compress.c -o Source/cs_ci_compress.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_compress.c -o Source/cs_cl_compress.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_convert.c -o Source/cs_convert.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_counts.c -o Source/cs_counts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_counts.c -o Source/cs_dl_counts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_counts.c -o Source/cs_ci_counts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_counts.c -o Source/cs_cl_counts.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cumsum.c -o Source/cs_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_cumsum.c -o Source/cs_dl_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_cumsum.c -o Source/cs_ci_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_cumsum.c -o Source/cs_cl_cumsum.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dfs.c -o Source/cs_dfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_dfs.c -o Source/cs_dl_dfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_dfs.c -o Source/cs_ci_dfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_dfs.c -o Source/cs_cl_dfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dmperm.c -o Source/cs_dmperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_dmperm.c -o Source/cs_dl_dmperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_dmperm.c -o Source/cs_ci_dmperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_dmperm.c -o Source/cs_cl_dmperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_droptol.c -o Source/cs_droptol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_droptol.c -o Source/cs_dl_droptol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_droptol.c -o Source/cs_ci_droptol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_droptol.c -o Source/cs_cl_droptol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dropzeros.c -o Source/cs_dropzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_dropzeros.c -o Source/cs_dl_dropzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_dropzeros.c -o Source/cs_ci_dropzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_dropzeros.c -o Source/cs_cl_dropzeros.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dupl.c -o Source/cs_dupl.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_dupl.c -o Source/cs_dl_dupl.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_dupl.c -o Source/cs_ci_dupl.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_dupl.c -o Source/cs_cl_dupl.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_entry.c -o Source/cs_entry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_entry.c -o Source/cs_dl_entry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_entry.c -o Source/cs_ci_entry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_entry.c -o Source/cs_cl_entry.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ereach.c -o Source/cs_ereach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_ereach.c -o Source/cs_dl_ereach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_ereach.c -o Source/cs_ci_ereach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_ereach.c -o Source/cs_cl_ereach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_etree.c -o Source/cs_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_etree.c -o Source/cs_dl_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_etree.c -o Source/cs_ci_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_etree.c -o Source/cs_cl_etree.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_fkeep.c -o Source/cs_fkeep.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_fkeep.c -o Source/cs_dl_fkeep.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_fkeep.c -o Source/cs_ci_fkeep.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_fkeep.c -o Source/cs_cl_fkeep.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_gaxpy.c -o Source/cs_gaxpy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_gaxpy.c -o Source/cs_dl_gaxpy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_gaxpy.c -o Source/cs_ci_gaxpy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_gaxpy.c -o Source/cs_cl_gaxpy.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_happly.c -o Source/cs_happly.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_happly.c -o Source/cs_dl_happly.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_happly.c -o Source/cs_ci_happly.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_happly.c -o Source/cs_cl_happly.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_house.c -o Source/cs_house.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_house.c -o Source/cs_dl_house.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_house.c -o Source/cs_ci_house.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_house.c -o Source/cs_cl_house.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ipvec.c -o Source/cs_ipvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_ipvec.c -o Source/cs_dl_ipvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_ipvec.c -o Source/cs_ci_ipvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_ipvec.c -o Source/cs_cl_ipvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_leaf.c -o Source/cs_leaf.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_leaf.c -o Source/cs_dl_leaf.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_leaf.c -o Source/cs_ci_leaf.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_leaf.c -o Source/cs_cl_leaf.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_load.c -o Source/cs_load.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_load.c -o Source/cs_dl_load.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_load.c -o Source/cs_ci_load.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_load.c -o Source/cs_cl_load.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_lsolve.c -o Source/cs_lsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_lsolve.c -o Source/cs_dl_lsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_lsolve.c -o Source/cs_ci_lsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_lsolve.c -o Source/cs_cl_lsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ltsolve.c -o Source/cs_ltsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_ltsolve.c -o Source/cs_dl_ltsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_ltsolve.c -o Source/cs_ci_ltsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_ltsolve.c -o Source/cs_cl_ltsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_lu.c -o Source/cs_lu.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_lu.c -o Source/cs_dl_lu.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_lu.c -o Source/cs_ci_lu.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_lu.c -o Source/cs_cl_lu.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_lusol.c -o Source/cs_lusol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_lusol.c -o Source/cs_dl_lusol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_lusol.c -o Source/cs_ci_lusol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_lusol.c -o Source/cs_cl_lusol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_malloc.c -o Source/cs_malloc.o Source/cs_malloc.c: In function ‘cs_di_realloc’: Source/cs_malloc.c:37:26: warning: pointer ‘p_11(D)’ may be used after ‘realloc’ [-Wuse-after-free] 37 | return ((*ok) ? pnew : p) ; /* return original p if failure */ | ~~~~~~~~~~~~~~^~~~ Source/cs_malloc.c:35:12: note: call to ‘realloc’ here 35 | pnew = realloc (p, CS_MAX (n,1) * size) ; /* realloc the block */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_malloc.c -o Source/cs_dl_malloc.o In file included from Source/cs_dl_malloc.c:9: Source/cs_malloc.c: In function ‘cs_dl_realloc’: Source/cs_malloc.c:37:26: warning: pointer ‘p_11(D)’ may be used after ‘realloc’ [-Wuse-after-free] 37 | return ((*ok) ? pnew : p) ; /* return original p if failure */ | ~~~~~~~~~~~~~~^~~~ Source/cs_malloc.c:35:12: note: call to ‘realloc’ here 35 | pnew = realloc (p, CS_MAX (n,1) * size) ; /* realloc the block */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_malloc.c -o Source/cs_ci_malloc.o In file included from Source/cs_ci_malloc.c:9: Source/cs_malloc.c: In function ‘cs_ci_realloc’: Source/cs_malloc.c:37:26: warning: pointer ‘p_11(D)’ may be used after ‘realloc’ [-Wuse-after-free] 37 | return ((*ok) ? pnew : p) ; /* return original p if failure */ | ~~~~~~~~~~~~~~^~~~ Source/cs_malloc.c:35:12: note: call to ‘realloc’ here 35 | pnew = realloc (p, CS_MAX (n,1) * size) ; /* realloc the block */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_malloc.c -o Source/cs_cl_malloc.o In file included from Source/cs_cl_malloc.c:10: Source/cs_malloc.c: In function ‘cs_cl_realloc’: Source/cs_malloc.c:37:26: warning: pointer ‘p_11(D)’ may be used after ‘realloc’ [-Wuse-after-free] 37 | return ((*ok) ? pnew : p) ; /* return original p if failure */ | ~~~~~~~~~~~~~~^~~~ Source/cs_malloc.c:35:12: note: call to ‘realloc’ here 35 | pnew = realloc (p, CS_MAX (n,1) * size) ; /* realloc the block */ | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_maxtrans.c -o Source/cs_maxtrans.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_maxtrans.c -o Source/cs_dl_maxtrans.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_maxtrans.c -o Source/cs_ci_maxtrans.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_maxtrans.c -o Source/cs_cl_maxtrans.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_multiply.c -o Source/cs_multiply.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_multiply.c -o Source/cs_dl_multiply.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_multiply.c -o Source/cs_ci_multiply.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_multiply.c -o Source/cs_cl_multiply.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_norm.c -o Source/cs_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_norm.c -o Source/cs_dl_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_norm.c -o Source/cs_ci_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_norm.c -o Source/cs_cl_norm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_permute.c -o Source/cs_permute.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_permute.c -o Source/cs_dl_permute.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_permute.c -o Source/cs_ci_permute.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_permute.c -o Source/cs_cl_permute.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_pinv.c -o Source/cs_pinv.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_pinv.c -o Source/cs_dl_pinv.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_pinv.c -o Source/cs_ci_pinv.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_pinv.c -o Source/cs_cl_pinv.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_post.c -o Source/cs_post.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_post.c -o Source/cs_dl_post.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_post.c -o Source/cs_ci_post.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_post.c -o Source/cs_cl_post.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_print.c -o Source/cs_print.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_print.c -o Source/cs_dl_print.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_print.c -o Source/cs_ci_print.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_print.c -o Source/cs_cl_print.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_pvec.c -o Source/cs_pvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_pvec.c -o Source/cs_dl_pvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_pvec.c -o Source/cs_ci_pvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_pvec.c -o Source/cs_cl_pvec.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_qr.c -o Source/cs_qr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_qr.c -o Source/cs_dl_qr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_qr.c -o Source/cs_ci_qr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_qr.c -o Source/cs_cl_qr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_qrsol.c -o Source/cs_qrsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_qrsol.c -o Source/cs_dl_qrsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_qrsol.c -o Source/cs_ci_qrsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_qrsol.c -o Source/cs_cl_qrsol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_randperm.c -o Source/cs_randperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_randperm.c -o Source/cs_dl_randperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_randperm.c -o Source/cs_ci_randperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_randperm.c -o Source/cs_cl_randperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_reach.c -o Source/cs_reach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_reach.c -o Source/cs_dl_reach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_reach.c -o Source/cs_ci_reach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_reach.c -o Source/cs_cl_reach.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_scatter.c -o Source/cs_scatter.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_scatter.c -o Source/cs_dl_scatter.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_scatter.c -o Source/cs_ci_scatter.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_scatter.c -o Source/cs_cl_scatter.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_scc.c -o Source/cs_scc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_scc.c -o Source/cs_dl_scc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_scc.c -o Source/cs_ci_scc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_scc.c -o Source/cs_cl_scc.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_schol.c -o Source/cs_schol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_schol.c -o Source/cs_dl_schol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_schol.c -o Source/cs_ci_schol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_schol.c -o Source/cs_cl_schol.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_spsolve.c -o Source/cs_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_spsolve.c -o Source/cs_dl_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_spsolve.c -o Source/cs_ci_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_spsolve.c -o Source/cs_cl_spsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_sqr.c -o Source/cs_sqr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_sqr.c -o Source/cs_dl_sqr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_sqr.c -o Source/cs_ci_sqr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_sqr.c -o Source/cs_cl_sqr.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_symperm.c -o Source/cs_symperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_symperm.c -o Source/cs_dl_symperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_symperm.c -o Source/cs_ci_symperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_symperm.c -o Source/cs_cl_symperm.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_tdfs.c -o Source/cs_tdfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_tdfs.c -o Source/cs_dl_tdfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_tdfs.c -o Source/cs_ci_tdfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_tdfs.c -o Source/cs_cl_tdfs.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_transpose.c -o Source/cs_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_transpose.c -o Source/cs_dl_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_transpose.c -o Source/cs_ci_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_transpose.c -o Source/cs_cl_transpose.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_updown.c -o Source/cs_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_updown.c -o Source/cs_dl_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_updown.c -o Source/cs_ci_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_updown.c -o Source/cs_cl_updown.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_usolve.c -o Source/cs_usolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_usolve.c -o Source/cs_dl_usolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_usolve.c -o Source/cs_ci_usolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_usolve.c -o Source/cs_cl_usolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_util.c -o Source/cs_util.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_util.c -o Source/cs_dl_util.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_util.c -o Source/cs_ci_util.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_util.c -o Source/cs_cl_util.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_utsolve.c -o Source/cs_utsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_dl_utsolve.c -o Source/cs_dl_utsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_ci_utsolve.c -o Source/cs_ci_utsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cs_cl_utsolve.c -o Source/cs_cl_utsolve.o gcc -std=gnu23 -I./Include -I../SuiteSparse_config -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c Source/cxsparse_version.c -o Source/cxsparse_version.o rm -f CXSparse.a ar -cr CXSparse.a Source/cs_add.o Source/cs_dl_add.o Source/cs_ci_add.o Source/cs_cl_add.o Source/cs_amd.o Source/cs_dl_amd.o Source/cs_ci_amd.o Source/cs_cl_amd.o Source/cs_chol.o Source/cs_dl_chol.o Source/cs_ci_chol.o Source/cs_cl_chol.o Source/cs_cholsol.o Source/cs_dl_cholsol.o Source/cs_ci_cholsol.o Source/cs_cl_cholsol.o Source/cs_compress.o Source/cs_dl_compress.o Source/cs_ci_compress.o Source/cs_cl_compress.o Source/cs_convert.o Source/cs_counts.o Source/cs_dl_counts.o Source/cs_ci_counts.o Source/cs_cl_counts.o Source/cs_cumsum.o Source/cs_dl_cumsum.o Source/cs_ci_cumsum.o Source/cs_cl_cumsum.o Source/cs_dfs.o Source/cs_dl_dfs.o Source/cs_ci_dfs.o Source/cs_cl_dfs.o Source/cs_dmperm.o Source/cs_dl_dmperm.o Source/cs_ci_dmperm.o Source/cs_cl_dmperm.o Source/cs_droptol.o Source/cs_dl_droptol.o Source/cs_ci_droptol.o Source/cs_cl_droptol.o Source/cs_dropzeros.o Source/cs_dl_dropzeros.o Source/cs_ci_dropzeros.o Source/cs_cl_dropzeros.o Source/cs_dupl.o Source/cs_dl_dupl.o Source/cs_ci_dupl.o Source/cs_cl_dupl.o Source/cs_entry.o Source/cs_dl_entry.o Source/cs_ci_entry.o Source/cs_cl_entry.o Source/cs_ereach.o Source/cs_dl_ereach.o Source/cs_ci_ereach.o Source/cs_cl_ereach.o Source/cs_etree.o Source/cs_dl_etree.o Source/cs_ci_etree.o Source/cs_cl_etree.o Source/cs_fkeep.o Source/cs_dl_fkeep.o Source/cs_ci_fkeep.o Source/cs_cl_fkeep.o Source/cs_gaxpy.o Source/cs_dl_gaxpy.o Source/cs_ci_gaxpy.o Source/cs_cl_gaxpy.o Source/cs_happly.o Source/cs_dl_happly.o Source/cs_ci_happly.o Source/cs_cl_happly.o Source/cs_house.o Source/cs_dl_house.o Source/cs_ci_house.o Source/cs_cl_house.o Source/cs_ipvec.o Source/cs_dl_ipvec.o Source/cs_ci_ipvec.o Source/cs_cl_ipvec.o Source/cs_leaf.o Source/cs_dl_leaf.o Source/cs_ci_leaf.o Source/cs_cl_leaf.o Source/cs_load.o Source/cs_dl_load.o Source/cs_ci_load.o Source/cs_cl_load.o Source/cs_lsolve.o Source/cs_dl_lsolve.o Source/cs_ci_lsolve.o Source/cs_cl_lsolve.o Source/cs_ltsolve.o Source/cs_dl_ltsolve.o Source/cs_ci_ltsolve.o Source/cs_cl_ltsolve.o Source/cs_lu.o Source/cs_dl_lu.o Source/cs_ci_lu.o Source/cs_cl_lu.o Source/cs_lusol.o Source/cs_dl_lusol.o Source/cs_ci_lusol.o Source/cs_cl_lusol.o Source/cs_malloc.o Source/cs_dl_malloc.o Source/cs_ci_malloc.o Source/cs_cl_malloc.o Source/cs_maxtrans.o Source/cs_dl_maxtrans.o Source/cs_ci_maxtrans.o Source/cs_cl_maxtrans.o Source/cs_multiply.o Source/cs_dl_multiply.o Source/cs_ci_multiply.o Source/cs_cl_multiply.o Source/cs_norm.o Source/cs_dl_norm.o Source/cs_ci_norm.o Source/cs_cl_norm.o Source/cs_permute.o Source/cs_dl_permute.o Source/cs_ci_permute.o Source/cs_cl_permute.o Source/cs_pinv.o Source/cs_dl_pinv.o Source/cs_ci_pinv.o Source/cs_cl_pinv.o Source/cs_post.o Source/cs_dl_post.o Source/cs_ci_post.o Source/cs_cl_post.o Source/cs_print.o Source/cs_dl_print.o Source/cs_ci_print.o Source/cs_cl_print.o Source/cs_pvec.o Source/cs_dl_pvec.o Source/cs_ci_pvec.o Source/cs_cl_pvec.o Source/cs_qr.o Source/cs_dl_qr.o Source/cs_ci_qr.o Source/cs_cl_qr.o Source/cs_qrsol.o Source/cs_dl_qrsol.o Source/cs_ci_qrsol.o Source/cs_cl_qrsol.o Source/cs_randperm.o Source/cs_dl_randperm.o Source/cs_ci_randperm.o Source/cs_cl_randperm.o Source/cs_reach.o Source/cs_dl_reach.o Source/cs_ci_reach.o Source/cs_cl_reach.o Source/cs_scatter.o Source/cs_dl_scatter.o Source/cs_ci_scatter.o Source/cs_cl_scatter.o Source/cs_scc.o Source/cs_dl_scc.o Source/cs_ci_scc.o Source/cs_cl_scc.o Source/cs_schol.o Source/cs_dl_schol.o Source/cs_ci_schol.o Source/cs_cl_schol.o Source/cs_spsolve.o Source/cs_dl_spsolve.o Source/cs_ci_spsolve.o Source/cs_cl_spsolve.o Source/cs_sqr.o Source/cs_dl_sqr.o Source/cs_ci_sqr.o Source/cs_cl_sqr.o Source/cs_symperm.o Source/cs_dl_symperm.o Source/cs_ci_symperm.o Source/cs_cl_symperm.o Source/cs_tdfs.o Source/cs_dl_tdfs.o Source/cs_ci_tdfs.o Source/cs_cl_tdfs.o Source/cs_transpose.o Source/cs_dl_transpose.o Source/cs_ci_transpose.o Source/cs_cl_transpose.o Source/cs_updown.o Source/cs_dl_updown.o Source/cs_ci_updown.o Source/cs_cl_updown.o Source/cs_usolve.o Source/cs_dl_usolve.o Source/cs_ci_usolve.o Source/cs_cl_usolve.o Source/cs_util.o Source/cs_dl_util.o Source/cs_ci_util.o Source/cs_cl_util.o Source/cs_utsolve.o Source/cs_dl_utsolve.o Source/cs_ci_utsolve.o Source/cs_cl_utsolve.o Source/cxsparse_version.o ranlib CXSparse.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/CXSparse' cd SuiteSparse/SuiteSparse_config && make clean all CC="gcc -std=gnu23" CPPFLAGS="-I/usr/local/include -I\"/builddir/build/BUILD/R-4.6.2/include\" -I\"/builddir/build/BUILD/R-4.6.2/include\" -DNDEBUG -DNPRINT -DNTIMER" CFLAGS="-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden" AR="ar" RANLIB="ranlib" make[4]: Entering directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/SuiteSparse_config' gcc -std=gnu23 -I/usr/local/include -I"/builddir/build/BUILD/R-4.6.2/include" -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -DNPRINT -DNTIMER -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -fpic -fvisibility=hidden -c SuiteSparse_config.c -o SuiteSparse_config.o rm -f SuiteSparse_config.a ar -cr SuiteSparse_config.a SuiteSparse_config.o ranlib SuiteSparse_config.a make[4]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src/SuiteSparse/SuiteSparse_config' gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o Matrix.so Csparse.o attrib.o bind.o cholmod-common.o cholmod-etc.o coerce.o cs-etc.o dense.o determinant.o expm.o factor.o idz.o init.o kappa.o matmult.o objects.o perm.o solve.o sparse.o subassign.o subscript.o utils-R.o utils.o validity.o vector.o SuiteSparse/CHOLMOD/CHOLMOD.a SuiteSparse/CCOLAMD/CCOLAMD.a SuiteSparse/CAMD/CAMD.a SuiteSparse/COLAMD/COLAMD.a SuiteSparse/AMD/AMD.a SuiteSparse/CXSparse/CXSparse.a SuiteSparse/SuiteSparse_config/SuiteSparse_config.a -lflexiblas -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpZ9xKJG/R.INSTALL460f39dfc3dd/Matrix/src' installing to /builddir/build/BUILD/R-4.6.2/library/Matrix/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for ‘chol2inv’ from ‘base’ in package ‘Matrix’ (from the saved implicit definition) Creating a generic function for ‘chol2inv’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘diag’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘zapsmall’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘drop’ from package ‘base’ in package ‘Matrix’ in method for ‘coerce’ with signature ‘"matrix.csc","dgCMatrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csr","dgRMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.coo","dgTMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.csr","dgCMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.coo","dgCMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.csc","CsparseMatrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csc","RsparseMatrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csc","TsparseMatrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csr","CsparseMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.csr","RsparseMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.csr","TsparseMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.coo","CsparseMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.coo","RsparseMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.coo","TsparseMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.csc","sparseMatrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csr","sparseMatrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.coo","sparseMatrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"matrix.csc","Matrix"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"matrix.csr","Matrix"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"matrix.coo","Matrix"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"dgCMatrix","matrix.csc"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"dgRMatrix","matrix.csr"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"dgTMatrix","matrix.coo"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"Matrix","matrix.csc"’: no definition for class “matrix.csc” in method for ‘coerce’ with signature ‘"Matrix","matrix.csr"’: no definition for class “matrix.csr” in method for ‘coerce’ with signature ‘"Matrix","matrix.coo"’: no definition for class “matrix.coo” in method for ‘coerce’ with signature ‘"graphAM","TsparseMatrix"’: no definition for class “graphAM” in method for ‘coerce’ with signature ‘"graphNEL","TsparseMatrix"’: no definition for class “graphNEL” in method for ‘coerce’ with signature ‘"graph","CsparseMatrix"’: no definition for class “graph” in method for ‘coerce’ with signature ‘"graph","RsparseMatrix"’: no definition for class “graph” in method for ‘coerce’ with signature ‘"graph","TsparseMatrix"’: no definition for class “graph” in method for ‘coerce’ with signature ‘"graph","sparseMatrix"’: no definition for class “graph” in method for ‘coerce’ with signature ‘"graph","Matrix"’: no definition for class “graph” in method for ‘coerce’ with signature ‘"TsparseMatrix","graphNEL"’: no definition for class “graphNEL” in method for ‘coerce’ with signature ‘"Matrix","graphNEL"’: no definition for class “graphNEL” in method for ‘coerce’ with signature ‘"Matrix","graph"’: no definition for class “graph” Creating a generic function for ‘colSums’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘colMeans’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘rowSums’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘rowMeans’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘diag<-’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘unname’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘norm’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘rcond’ from ‘base’ in package ‘Matrix’ (from the saved implicit definition) Creating a generic function for ‘rcond’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘cov2cor’ from package ‘stats’ in package ‘Matrix’ Creating a generic function for ‘qr.Q’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.R’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.X’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.coef’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.fitted’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.resid’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.qty’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘qr.qy’ from package ‘base’ in package ‘Matrix’ Creating a generic function for ‘toeplitz’ from ‘stats’ in package ‘Matrix’ (from the saved implicit definition) Creating a generic function for ‘toeplitz’ from package ‘stats’ in package ‘Matrix’ Creating a generic function for ‘which’ from package ‘base’ in package ‘Matrix’ ** help *** installing help indices converting help for package ‘Matrix’ finding HTML links ... done BunchKaufman-class html BunchKaufman-methods html CAex html CHMfactor-class html Cholesky-class html Cholesky-methods html CsparseMatrix-class html Diagonal html Hilbert html KNex html KhatriRao html Matrix-class html Matrix-defunct html Matrix-deprecated html Matrix-notyet html Matrix html MatrixClass html MatrixFactorization-class html RsparseMatrix-class html Schur-class html Schur-methods html TsparseMatrix-class html USCounties html abIndex-class html abIseq html all.equal-methods html asUniqueT html band-methods html bandSparse html bdiag html boolmatmult-methods html cbind2-methods html chol-methods html chol2inv-methods html coerce-methods-SparseM html coerce-methods-graph html colSums-methods html condest html dMatrix-class html ddenseMatrix-class html ddiMatrix-class html denseLU-class html denseMatrix-class html dgCMatrix-class html dgRMatrix-class html dgTMatrix-class html dgeMatrix-class html diagU2N html diagonalMatrix-class html dimScale html dmperm html dpoMatrix-class html drop0 html dsCMatrix-class html dsRMatrix-class html dsparseMatrix-class html dsyMatrix-class html dtCMatrix-class html dtRMatrix-class-sparse html dtpMatrix-class html dtrMatrix-class-dense html expand-methods html expm-methods html externalFormats html facmul-methods html fastMisc html forceSymmetric-methods html formatSparseM html generalMatrix-class html image-methods html indMatrix-class html index-class html invertPerm html is.na-methods html is.null.DN html isSymmetric-methods html isTriangular-methods html kronecker-methods html ldenseMatrix-class html ldiMatrix-class html lgeMatrix-class html lsparseMatrix-class html lsyMatrix-class html ltrMatrix-class html lu-methods html mat2triplet html matmult-methods html nMatrix-class html ndenseMatrix-class html nearPD html ngeMatrix-class html nnzero-methods html norm-methods html nsparseMatrix-class html nsyMatrix-class html ntrMatrix-class html pMatrix-class html pack-methods html packedMatrix-class html printSpMatrix html qr-methods html rankMatrix html rcond-methods html rep2abI html rleDiff-class html rsparsematrix html solve-methods html spMatrix html sparse.model.matrix html sparseLU-class html sparseMatrix-class html sparseMatrix html sparseQR-class html sparseVector-class html sparseVector html subassign-methods html subscript-methods html symmetricMatrix-class html symmpart-methods html triangularMatrix-class html unpackedMatrix-class html updown-methods html wrld_1deg html ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (Matrix) Making 'packages.html' ... done begin installing recommended package nlme * installing *source* package ‘nlme’ ... ** this is package ‘nlme’ version ‘3.1-171’ ** package ‘nlme’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ using Fortran compiler: ‘GNU Fortran (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpNYLBwZ/R.INSTALL4cd02347e121/nlme/src' gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c chol.f -o chol.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c corStruct.c -o corStruct.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gnls.c -o gnls.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c matrix.c -o matrix.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nlOptimizer.c -o nlOptimizer.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nlme.c -o nlme.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nlmefit.c -o nlmefit.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pdMat.c -o pdMat.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fvisibility=hidden -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pythag.c -o pythag.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c rs.f -o rs.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o nlme.so chol.o corStruct.o gnls.o init.o matrix.o nlOptimizer.o nlme.o nlmefit.o pdMat.o pythag.o rs.o -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpNYLBwZ/R.INSTALL4cd02347e121/nlme/src' installing to /builddir/build/BUILD/R-4.6.2/library/nlme/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘nlme’ finding HTML links ... done ACF html ACF.gls html ACF.lme html Alfalfa html Assay html BodyWeight html Cefamandole html Coef html Covariate html Covariate.varFunc html Dialyzer html Dim html Dim.corSpatial html Dim.corStruct html Dim.pdMat html Earthquake html Extract.pdMat html Fatigue html Gasoline html Glucose html Glucose2 html Gun html IGF html Initialize html Initialize.corStruct html Initialize.glsStruct html Initialize.lmeStruct html Initialize.reStruct html Initialize.varFunc html LDEsysMat html Machines html MathAchSchool html MathAchieve html Matrix html Matrix.pdMat html Matrix.reStruct html Meat html Milk html Muscle html Names html Names.formula html Names.pdBlocked html Names.pdMat html Names.reStruct html Nitrendipene html Oats html Orthodont html Ovary html Oxboys html Oxide html PBG html Phenobarb html Pixel html Quinidine html Rail html RatPupWeight html Relaxin html Remifentanil html Soybean html Spruce html Tetracycline1 html Tetracycline2 html VarCorr html Variogram html Variogram.corExp html Variogram.corGaus html Variogram.corLin html Variogram.corRatio html Variogram.corSpatial html Variogram.corSpher html Variogram.default html Variogram.gls html Variogram.lme html Wafer html Wheat html Wheat2 html allCoef html anova.gls html anova.lme html as.matrix.corStruct html as.matrix.pdMat html as.matrix.reStruct html asOneFormula html asTable html augPred html balancedGrouped html bdf html coef.corStruct html coef.gnls html coef.lmList html coef.lme html coef.modelStruct html coef.pdMat html coef.reStruct html coef.varFunc html collapse html collapse.groupedData html compareFits html comparePred html corAR1 html corARMA html corCAR1 html corClasses html corCompSymm html corExp html corFactor html corFactor.corStruct html corGaus html corLin html corMatrix html corMatrix.corStruct html corMatrix.pdMat html corMatrix.reStruct html corNatural html corRatio html corSpatial html corSpher html corSymm html ergoStool html fdHess html fitted.glsStruct html fitted.gnlsStruct html fitted.lmList html fitted.lme html fitted.lmeStruct html fitted.nlmeStruct html fixed.effects html fixef.lmList html formula.pdBlocked html formula.pdMat html formula.reStruct html gapply html getCovariate html getCovariate.corStruct html getCovariate.data.frame html getCovariate.varFunc html getCovariateFormula html getData html getData.gls html getData.lmList html getData.lme html getGroups html getGroups.corStruct html getGroups.data.frame html getGroups.gls html getGroups.lmList html getGroups.lme html getGroups.varFunc html getGroupsFormula html getResponse html getResponseFormula html getVarCov html gls-internal html gls html glsControl html glsObject html glsStruct html gnls html gnlsControl html gnlsObject html gnlsStruct html groupedData html gsummary html intervals html intervals.gls html intervals.lmList html intervals.lme html isBalanced html isInitialized html lmList html lmList.groupedData html lme html lme.groupedData html lme.lmList html lmeControl html lmeObject html lmeStruct html logDet html logDet.corStruct html logDet.pdMat html logDet.reStruct html logLik.corStruct html logLik.glsStruct html logLik.gnls html logLik.gnlsStruct html logLik.lmList html logLik.lme html logLik.lmeStruct html logLik.reStruct html logLik.varFunc html model.matrix.reStruct html needUpdate html needUpdate.modelStruct html nlme-deprecated html nlme html nlme.nlsList html nlmeControl html nlmeObject html nlmeStruct html nlsList html nlsList.selfStart html pairs.compareFits html pairs.lmList html pairs.lme html pdBlocked html pdClasses html pdCompSymm html pdConstruct html pdConstruct.pdBlocked html pdDiag html pdFactor html pdFactor.reStruct html pdIdent html pdLogChol html pdMat html pdMatrix html pdMatrix.reStruct html pdNatural html pdSymm html phenoModel html plot.ACF html plot.Variogram html plot.augPred html plot.compareFits html plot.gls html plot.intervals.lmList html plot.lmList html plot.lme html plot.nffGroupedData html plot.nfnGroupedData html plot.nmGroupedData html plot.ranef.lmList html plot.ranef.lme html pooledSD html predict.gls html predict.gnls html predict.lmList html predict.lme html predict.nlme html print.summary.pdMat html print.varFunc html qqnorm.gls html qqnorm.lme html quinModel html random.effects html ranef.lmList html ranef.lme html reStruct html recalc html recalc.corStruct html recalc.modelStruct html recalc.reStruct html recalc.varFunc html residuals.gls html residuals.glsStruct html residuals.gnlsStruct html residuals.lmList html residuals.lme html residuals.lmeStruct html residuals.nlmeStruct html simulate.lme html solve.pdMat html solve.reStruct html splitFormula html summary.corStruct html summary.gls html summary.lmList html summary.lme html summary.modelStruct html summary.nlsList html summary.pdMat html summary.varFunc html update.modelStruct html update.varFunc html varClasses html varComb html varConstPower html varConstProp html varExp html varFixed html varFunc html varIdent html varPower html varWeights html varWeights.glsStruct html varWeights.lmeStruct html ** building package indices ** testing if installed package can be loaded * DONE (nlme) Making 'packages.html' ... done begin installing recommended package survival * installing *source* package ‘survival’ ... ** this is package ‘survival’ version ‘3.8-12’ ** package ‘survival’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpidNAuC/R.INSTALL4d2743f9431f/survival/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agexact.c -o agexact.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agfit4.c -o agfit4.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agfit5.c -o agfit5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agmart.c -o agmart.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agmart3.c -o agmart3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agscore2.c -o agscore2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agscore3.c -o agscore3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agsurv4.c -o agsurv4.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c agsurv5.c -o agsurv5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cdecomp.c -o cdecomp.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chinv2.c -o chinv2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chinv3.c -o chinv3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cholesky2.c -o cholesky2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cholesky3.c -o cholesky3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cholesky5.c -o cholesky5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chsolve2.c -o chsolve2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chsolve3.c -o chsolve3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chsolve5.c -o chsolve5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c collapse.c -o collapse.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c concordance1.c -o concordance1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c concordance3.c -o concordance3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c concordance5.c -o concordance5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cox_Rcallback.c -o cox_Rcallback.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxcount1.c -o coxcount1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxdetail.c -o coxdetail.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxexact.c -o coxexact.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxfit5.c -o coxfit5.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxfit6.c -o coxfit6.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxmart.c -o coxmart.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxmart2.c -o coxmart2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxph_wtest.c -o coxph_wtest.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxsafe.c -o coxsafe.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxscho.c -o coxscho.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxscore2.c -o coxscore2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxsurv1.c -o coxsurv1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxsurv2.c -o coxsurv2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxsurv3.c -o coxsurv3.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxsurv4.c -o coxsurv4.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dmatrix.c -o dmatrix.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c doloop.c -o doloop.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fastkm.c -o fastkm.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c finegray.c -o finegray.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gchol.c -o gchol.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c multicheck.c -o multicheck.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c norisk.c -o norisk.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pyears1.c -o pyears1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pyears2.c -o pyears2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pyears3b.c -o pyears3b.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pystep.c -o pystep.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c residcsum.c -o residcsum.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survConcordance.c -o survConcordance.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survdiff2.c -o survdiff2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survfit4.c -o survfit4.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survfitaj.c -o survfitaj.o survfitaj.c: In function ‘survfitaj’: survfitaj.c:510:21: warning: ‘stdp’ may be used uninitialized [-Wmaybe-uninitialized] 510 | stdp[j][i] = se1[j]; | ~~~~^~~ survfitaj.c:96:14: note: ‘stdp’ was declared here 96 | double **stdp, **stdc, **stda; | ^~~~ survfitaj.c:517:32: warning: ‘stdc’ may be used uninitialized [-Wmaybe-uninitialized] 517 | if (sefit > 0) stdc[jk][i] = se2[jk]; | ~~~~^~~~ survfitaj.c:96:23: note: ‘stdc’ was declared here 96 | double **stdp, **stdc, **stda; | ^~~~ survfitaj.c:511:21: warning: ‘stda’ may be used uninitialized [-Wmaybe-uninitialized] 511 | stda[j][i] = se3[j]; | ~~~~^~~ survfitaj.c:96:31: note: ‘stda’ was declared here 96 | double **stdp, **stdc, **stda; | ^~~~ gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survfitkm.c -o survfitkm.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survfitresid.c -o survfitresid.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survpenal.c -o survpenal.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survreg6.c -o survreg6.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survreg7.c -o survreg7.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survregc1.c -o survregc1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survregc2.c -o survregc2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c survsplit.c -o survsplit.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c tmerge.c -o tmerge.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c twoclust.c -o twoclust.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c zph1.c -o zph1.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c zph2.c -o zph2.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o survival.so agexact.o agfit4.o agfit5.o agmart.o agmart3.o agscore2.o agscore3.o agsurv4.o agsurv5.o cdecomp.o chinv2.o chinv3.o cholesky2.o cholesky3.o cholesky5.o chsolve2.o chsolve3.o chsolve5.o collapse.o concordance1.o concordance3.o concordance5.o cox_Rcallback.o coxcount1.o coxdetail.o coxexact.o coxfit5.o coxfit6.o coxmart.o coxmart2.o coxph_wtest.o coxsafe.o coxscho.o coxscore2.o coxsurv1.o coxsurv2.o coxsurv3.o coxsurv4.o dmatrix.o doloop.o fastkm.o finegray.o gchol.o init.o multicheck.o norisk.o pyears1.o pyears2.o pyears3b.o pystep.o residcsum.o survConcordance.o survdiff2.o survfit4.o survfitaj.o survfitkm.o survfitresid.o survpenal.o survreg6.o survreg7.o survregc1.o survregc2.o survsplit.o tmerge.o twoclust.o zph1.o zph2.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpidNAuC/R.INSTALL4d2743f9431f/survival/src' installing to /builddir/build/BUILD/R-4.6.2/library/survival/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘survival’ finding HTML links ... done Surv html Surv2 html Survmethods html aareg html aeqSurv html aggregate.survfit html agreg.fit html aml html anova.coxph html attrassign html basehaz html bladder html blogit html brier html cch html cgd html cgd0 html cipoisson html clogit html cluster html colon html concordance html concordancefit html cox.zph html coxph html coxph.control html coxph.detail html coxph.object html coxph.wtest html coxphms.object html coxsurv.fit html diabetic html dsurvreg html finegray html flchain html frailty html fromtimeline html gbsg html heart html hoel html is.ratetable html kidney html levels.Surv html lines.survfit html logLik.coxph html logan html lung html lvcf html mgus html mgus2 html model.frame.coxph html model.matrix.coxph html myeloid html myeloma html nafld html neardate html nostutter html nsk html nwtco html ovarian html pbc html pbcseq html plot.aareg html plot.cox.zph html plot.survfit html predict.coxph html predict.survreg html print.aareg html print.summary.coxph html print.summary.survexp html print.summary.survfit html print.survfit html pseudo html pspline html pyears html quantile.survfit html ratetable html ratetableDate html rats html rats2 html reliability html residuals.coxph html residuals.survfit html residuals.survreg html retinopathy html rhDNase html ridge html rotterdam html royston html rttright html solder html stanford2 html statefig html strata html summary.aareg html summary.coxph html summary.pyears html summary.survexp html summary.survfit html survSplit html survcheck html survcondense html survdiff html survexp html survexp.fit html survexp.object html survexp.us html survfit html survfit.coxph html survfit.formula html survfit.matrix html survfit.object html survfit0 html survfit_confint html survfitcoxph.fit html survival-deprecated html survival-internal html survobrien html survreg html survreg.control html survreg.distributions html survreg.object html survregDtest html tcut html tmerge html tobin html transplant html udca html untangle.specials html uspop2 html vcov.coxph html veteran html xtfrm.Surv html yates html yates_setup html *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (survival) Making 'packages.html' ... done begin installing recommended package boot * installing *source* package ‘boot’ ... ** this is package ‘boot’ version ‘1.3-32’ ** package ‘boot’ successfully unpacked and MD5 sums checked ** using non-staged installation ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘boot’ finding HTML links ... done EEF.profile html Imp.Estimates html abc.ci html acme html aids html aircondit html amis html aml html beaver html bigcity html boot-practicals html boot html boot.array html boot.ci html brambles html breslow html calcium html cane html capability html catsM html cav html cd4 html cd4.nested html censboot html channing html claridge html cloth html co.transfer html coal html control html corr html cum3 html cv.glm html darwin html dogs html downs.bc html ducks html empinf html envelope html exp.tilt html fir html freq.array html frets html glm.diag html glm.diag.plots html gravity html hirose html imp.weights html inv.logit html islay html jack.after.boot html k3.linear html linear.approx html lines.saddle.distn html logit html manaus html melanoma html motor html neuro html nitrofen html nodal html norm.ci html nuclear html paulsen html plot.boot html poisons html polar html print.boot html print.bootci html print.saddle.distn html print.simplex html remission html saddle html saddle.distn html saddle.distn.object html salinity html simplex html simplex.object html smooth.f html sunspot html survival html tau html tilt.boot html tsboot html tuna html urine html var.linear html wool html ** building package indices ** testing if installed package can be loaded * DONE (boot) Making 'packages.html' ... done begin installing recommended package cluster * installing *source* package ‘cluster’ ... ** this is package ‘cluster’ version ‘2.1.8.3’ ** package ‘cluster’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpbsTPaC/R.INSTALL4e512fd690c1/cluster/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c clara.c -o clara.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c daisy.c -o daisy.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dysta.c -o dysta.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fanny.c -o fanny.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mona.c -o mona.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pam.c -o pam.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sildist.c -o sildist.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c spannel.c -o spannel.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c twins.c -o twins.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o cluster.so clara.o daisy.o dysta.o fanny.o init.o mona.o pam.o sildist.o spannel.o twins.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpbsTPaC/R.INSTALL4e512fd690c1/cluster/src' installing to /builddir/build/BUILD/R-4.6.2/library/cluster/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘cluster’ finding HTML links ... done agnes html agnes.object html agriculture html animals html bannerplot html chorSub html clara html clara.object html clusGap html clusplot.default html clusplot.partition html cluster-internal html coef.hclust html daisy html diana html dissimilarity.object html ellipsoidhull html fanny html fanny.object html flower html lower.to.upper.tri.inds html medoids html mona html mona.object html pam html pam.object html partition.object html plantTraits html plot.agnes html plot.diana html plot.mona html plot.partition html pltree html pluton html predict.ellipsoid html print.agnes html print.clara html print.diana html print.dissimilarity html print.fanny html print.mona html print.pam html ruspini html silhouette html sizeDiss html summary.agnes html summary.clara html summary.diana html summary.mona html summary.pam html twins.object html volume.ellipsoid html votes.repub html xclara html ** building package indices ** testing if installed package can be loaded * DONE (cluster) Making 'packages.html' ... done begin installing recommended package codetools * installing *source* package ‘codetools’ ... ** this is package ‘codetools’ version ‘0.2-20’ ** package ‘codetools’ successfully unpacked and MD5 sums checked ** using non-staged installation ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘codetools’ finding HTML links ... done checkUsage html codetools html findGlobals html showTree html ** building package indices ** testing if installed package can be loaded * DONE (codetools) Making 'packages.html' ... done begin installing recommended package foreign * installing *source* package ‘foreign’ ... ** this is package ‘foreign’ version ‘0.8-92’ ** package ‘foreign’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/Rtmp4eMTLX/R.INSTALL4ec547f62586/foreign/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c R_systat.c -o R_systat.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rdbfread.c -o Rdbfread.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c Rdbfwrite.c -o Rdbfwrite.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c SASxport.c -o SASxport.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c avl.c -o avl.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbfopen.c -o dbfopen.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c file-handle.c -o file-handle.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c format.c -o format.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c minitab.c -o minitab.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pfm-read.c -o pfm-read.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sfm-read.c -o sfm-read.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c spss.c -o spss.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stataread.c -o stataread.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o foreign.so R_systat.o Rdbfread.o Rdbfwrite.o SASxport.o avl.o dbfopen.o file-handle.o format.o init.o minitab.o pfm-read.o sfm-read.o spss.o stataread.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/Rtmp4eMTLX/R.INSTALL4ec547f62586/foreign/src' installing to /builddir/build/BUILD/R-4.6.2/library/foreign/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘foreign’ finding HTML links ... done lookup.xport html read.S html read.arff html read.dbf html read.dta html read.epiinfo html read.mtp html read.octave html read.spss html read.ssd html read.systat html read.xport html write.arff html write.dbf html write.dta html write.foreign html ** building package indices ** testing if installed package can be loaded * DONE (foreign) Making 'packages.html' ... done begin installing recommended package KernSmooth * installing *source* package ‘KernSmooth’ ... ** this is package ‘KernSmooth’ version ‘2.23-27’ ** package ‘KernSmooth’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ using Fortran compiler: ‘GNU Fortran (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/Rtmp4pJAA8/R.INSTALL4f2a728338cb/KernSmooth/src' gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c blkest.f -o blkest.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c cp.f -o cp.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dgedi.f -o dgedi.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dgefa.f -o dgefa.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c dgesl.f -o dgesl.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c linbin.f -o linbin.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c linbin2D.f -o linbin2D.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c locpoly.f -o locpoly.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c rlbin.f -o rlbin.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c sdiag.f -o sdiag.o gfortran -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules -c sstdiag.f -o sstdiag.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o KernSmooth.so blkest.o cp.o dgedi.o dgefa.o dgesl.o init.o linbin.o linbin2D.o locpoly.o rlbin.o sdiag.o sstdiag.o -lflexiblas -lgfortran -lm -lquadmath -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/Rtmp4pJAA8/R.INSTALL4f2a728338cb/KernSmooth/src' installing to /builddir/build/BUILD/R-4.6.2/library/KernSmooth/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘KernSmooth’ finding HTML links ... done bkde html bkde2D html bkfe html dpih html dpik html dpill html locpoly html ** building package indices ** testing if installed package can be loaded * DONE (KernSmooth) Making 'packages.html' ... done begin installing recommended package rpart * installing *source* package ‘rpart’ ... ** this is package ‘rpart’ version ‘4.1.27’ ** package ‘rpart’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpFdqEju/R.INSTALL4f84221becff/rpart/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c anova.c -o anova.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c anovapred.c -o anovapred.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c branch.c -o branch.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bsplit.c -o bsplit.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c choose_surg.c -o choose_surg.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fix_cp.c -o fix_cp.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c free_tree.c -o free_tree.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gini.c -o gini.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c graycode.c -o graycode.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c insert_split.c -o insert_split.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c make_cp_list.c -o make_cp_list.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c make_cp_table.c -o make_cp_table.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mysort.c -o mysort.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nodesplit.c -o nodesplit.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c partition.c -o partition.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c poisson.c -o poisson.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pred_rpart.c -o pred_rpart.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c print_tree.c -o print_tree.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpart.c -o rpart.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpart_callback.c -o rpart_callback.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpartexp.c -o rpartexp.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpartexp2.c -o rpartexp2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpcountup.c -o rpcountup.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpmatrix.c -o rpmatrix.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rundown.c -o rundown.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rundown2.c -o rundown2.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c surrogate.c -o surrogate.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c usersplit.c -o usersplit.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c xpred.c -o xpred.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c xval.c -o xval.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o rpart.so anova.o anovapred.o branch.o bsplit.o choose_surg.o fix_cp.o free_tree.o gini.o graycode.o init.o insert_split.o make_cp_list.o make_cp_table.o mysort.o nodesplit.o partition.o poisson.o pred_rpart.o print_tree.o rpart.o rpart_callback.o rpartexp.o rpartexp2.o rpcountup.o rpmatrix.o rundown.o rundown2.o surrogate.o usersplit.o xpred.o xval.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpFdqEju/R.INSTALL4f84221becff/rpart/src' installing to /builddir/build/BUILD/R-4.6.2/library/rpart/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘rpart’ finding HTML links ... done car.test.frame html car90 html cu.summary html kyphosis html labels.rpart html meanvar.rpart html na.rpart html path.rpart html plot.rpart html plotcp html post.rpart html predict.rpart html print.rpart html printcp html prune.rpart html residuals.rpart html rpart-internal html rpart html rpart.control html rpart.exp html rpart.object html rsq.rpart html snip.rpart html solder.balance html stagec html summary.rpart html text.rpart html xpred.rpart html *** copying figures ** building package indices ** installing vignettes ** testing if installed package can be loaded * DONE (rpart) Making 'packages.html' ... done begin installing recommended package class * installing *source* package ‘class’ ... ** this is package ‘class’ version ‘7.3-24’ ** package ‘class’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpcKwaye/R.INSTALL501673013d67/class/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c class.c -o class.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o class.so class.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpcKwaye/R.INSTALL501673013d67/class/src' installing to /builddir/build/BUILD/R-4.6.2/library/class/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘class’ finding HTML links ... done SOM html batchSOM html condense html knn html knn.cv html knn1 html lvq1 html lvq2 html lvq3 html lvqinit html lvqtest html multiedit html olvq1 html reduce.nn html somgrid html ** building package indices ** testing if installed package can be loaded * DONE (class) Making 'packages.html' ... done begin installing recommended package nnet * installing *source* package ‘nnet’ ... ** this is package ‘nnet’ version ‘7.3-21’ ** package ‘nnet’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpqyRbqO/R.INSTALL504e2ebe4d08/nnet/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c nnet.c -o nnet.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o nnet.so nnet.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpqyRbqO/R.INSTALL504e2ebe4d08/nnet/src' installing to /builddir/build/BUILD/R-4.6.2/library/nnet/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘nnet’ finding HTML links ... done class.ind html multinom html nnet.Hess html nnet html predict.nnet html which.is.max html ** building package indices ** testing if installed package can be loaded * DONE (nnet) Making 'packages.html' ... done begin installing recommended package spatial * installing *source* package ‘spatial’ ... ** this is package ‘spatial’ version ‘7.3-19’ ** package ‘spatial’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/RtmpICxVA1/R.INSTALL5086b585468/spatial/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c krc.c -o krc.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pps.c -o pps.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o spatial.so init.o krc.o pps.o -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/RtmpICxVA1/R.INSTALL5086b585468/spatial/src' installing to /builddir/build/BUILD/R-4.6.2/library/spatial/libs ** R ** data *** moving datasets to lazyload DB ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘spatial’ finding HTML links ... done Kaver html Kenvl html Kfn html Psim html SSI html Strauss html anova.trls html correlogram html expcov html ppgetregion html ppinit html pplik html ppregion html predict.trls html prmat html semat html surf.gls html surf.ls html topo html trls.influence html trmat html variogram html ** building package indices ** testing if installed package can be loaded * DONE (spatial) Making 'packages.html' ... done begin installing recommended package mgcv * installing *source* package ‘mgcv’ ... ** this is package ‘mgcv’ version ‘1.9-4’ ** package ‘mgcv’ successfully unpacked and MD5 sums checked ** using non-staged installation ** libs using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[3]: Entering directory '/tmp/Rtmp1XMRva/R.INSTALL50c44361b899/mgcv/src' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c coxph.c -o coxph.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c davies.c -o davies.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c discrete.c -o discrete.o In file included from discrete.c:29: discrete.c: In function ‘ncvd’: mgcv.h:62:14: warning: ‘A’ may be used uninitialized [-Wmaybe-uninitialized] 62 | #define FREE R_chk_free discrete.c:2989:11: note: ‘A’ was declared here 2989 | double *A,*A2,**A1,*Aaa,*IAaa,*Ap,*Aaap,*IA,*IAp,*ba,*bp,*rp,one=1.0,zero=0.0,*dp0,*dp1,*dp2, | ^ mgcv.h:62:14: warning: ‘A2’ may be used uninitialized [-Wmaybe-uninitialized] 62 | #define FREE R_chk_free discrete.c:2989:14: note: ‘A2’ was declared here 2989 | double *A,*A2,**A1,*Aaa,*IAaa,*Ap,*Aaap,*IA,*IAp,*ba,*bp,*rp,one=1.0,zero=0.0,*dp0,*dp1,*dp2, | ^~ gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gdi.c -o gdi.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c init.c -o init.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c magic.c -o magic.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mat.c -o mat.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c matrix.c -o matrix.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mgcv.c -o mgcv.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c misc.c -o misc.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mvn.c -o mvn.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ncv.c -o ncv.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qp.c -o qp.o qp.c: In function ‘QPCLS’: qp.c:429:10: warning: unused variable ‘x’ [-Wunused-variable] 429 | double x; | ^ gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c soap.c -o soap.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sparse-smooth.c -o sparse-smooth.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sparse.c -o sparse.o gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/local/include -fopenmp -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c tprs.c -o tprs.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o mgcv.so coxph.o davies.o discrete.o gdi.o init.o magic.o mat.o matrix.o mgcv.o misc.o mvn.o ncv.o qp.o soap.o sparse-smooth.o sparse.o tprs.o -lflexiblas -lgfortran -lm -lquadmath -fopenmp -L/builddir/build/BUILD/R-4.6.2/lib -lR make[3]: Leaving directory '/tmp/Rtmp1XMRva/R.INSTALL50c44361b899/mgcv/src' installing to /builddir/build/BUILD/R-4.6.2/library/mgcv/libs ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package ‘mgcv’ finding HTML links ... done Beta html FFdes html NCV html Predict.matrix html Predict.matrix.cr.smooth html Predict.matrix.soap.film html Rrank html Sl.initial.repara html Sl.repara html Sl.setup html Tweedie html XWXd html anova.gam html bam html bam.update html bandchol html bcg html blas.thread.test html bug.reports.mgcv html cSplineDes html chol.down html choose.k html clog html cnorm html columb html concurvity html coxph html coxpht html cpois html dDeta html dpnorm html dppois html exclude.too.far html extract.lme.cov html factor.smooth html family.mgcv html fix.family.link html fixDependence html formXtViX html formula.gam html fs.test html gam html gam.check html gam.control html gam.convergence html gam.fit html gam.fit3 html gam.fit5.post.proc html gam.mh html gam.models html gam.outer html gam.reparam html gam.scale html gam.selection html gam.side html gam.vcomp html gam2objective html gamObject html gamSim html gamlss.etamu html gamlss.gH html gamm html gammals html gaulss html get.var html gevlss html gfam html ginla html gumbls html identifiability html in.out html inSide html influence.gam html initial.sp html interpret.gam html jagam html k.check html ldTweedie html ldetS html linear.functional.terms html logLik.gam html lp html ls.size html magic html magic.post.proc html mchol html mgcv-FAQ html mgcv-package html mgcv-parallel html mini.roots html missing.data html model.matrix.gam html mono.con html mroot html multinom html mvn html negbin html new.name html notExp html notExp2 html null.space.dimension html ocat html one.se.rule html pcls html pdIdnot html pdTens html pen.edf html place.knots html plot.gam html polys.plot html predict.bam html predict.gam html print.gam html psum.chisq html qq.gam html rTweedie html random.effects html residuals.gam html rig html rmvn html s html scasm html scat html sdiag html shash html single.index html slanczos html smooth.construct html smooth.construct.ad.smooth.spec html smooth.construct.bs.smooth.spec html smooth.construct.cr.smooth.spec html smooth.construct.ds.smooth.spec html smooth.construct.fs.smooth.spec html smooth.construct.gp.smooth.spec html smooth.construct.mrf.smooth.spec html smooth.construct.ps.smooth.spec html smooth.construct.re.smooth.spec html smooth.construct.so.smooth.spec html smooth.construct.sos.smooth.spec html smooth.construct.sz.smooth.spec html smooth.construct.t2.smooth.spec html smooth.construct.tensor.smooth.spec html smooth.construct.tp.smooth.spec html smooth.info html smooth.terms html smooth2random html smoothCon html sp.vcov html spasm.construct html step.gam html summary.gam html t2 html te html tensor.prod.model.matrix html totalPenaltySpace html trichol html trind.generator html twlss html uniquecombs html vcov.gam html vis.gam html ziP html ziplss html ** building package indices ** testing if installed package can be loaded * DONE (mgcv) Making 'packages.html' ... done make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/Recommended' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library/Recommended' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' building/updating vignettes for package 'grid' ... building/updating vignettes for package 'parallel' ... building/updating vignettes for package 'utils' ... building/updating vignettes for package 'stats' ... make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2' configuring Java ... Java interpreter : /usr/bin/java Java version : 21.0.12.1 Java home path : /usr/lib/jvm/jre Java compiler : /usr/bin/javac Java headers gen.: Java archive tool: /usr/bin/jar trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm using C compiler: ‘gcc (GCC) 14.4.1 20260724 (Red Hat 14.4.1-4)’ make[2]: Entering directory '/tmp/Rjavareconf.movsbD' gcc -std=gnu23 -I"/builddir/build/BUILD/R-4.6.2/include" -DNDEBUG -I/usr/lib/jvm/jre/include -I/usr/lib/jvm/jre/include/linux -I/usr/local/include -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c conftest.c -o conftest.o gcc -std=gnu23 -shared -L/builddir/build/BUILD/R-4.6.2/lib -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o conftest.so conftest.o -L/usr/lib/jvm/jre/lib/server -ljvm -L/builddir/build/BUILD/R-4.6.2/lib -lR make[2]: Leaving directory '/tmp/Rjavareconf.movsbD' JAVA_HOME : /usr/lib/jvm/jre Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /builddir/build/BUILD/R-4.6.2 Done. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2' + cd src/nmath/standalone + make (cd ../../include; make Rmath.h) make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include' make[1]: 'Rmath.h' is up to date. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include' Copying source files make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mlutils.c -o mlutils.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c d1mach.c -o d1mach.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c i1mach.c -o i1mach.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmax2.c -o fmax2.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmin2.c -o fmin2.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fprec.c -o fprec.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fround.c -o fround.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ftrunc.c -o ftrunc.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sign.c -o sign.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fsign.c -o fsign.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imax2.c -o imax2.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imin2.c -o imin2.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chebyshev.c -o chebyshev.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c log1p.c -o log1p.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgammacor.c -o lgammacor.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gammalims.c -o gammalims.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stirlerr.c -o stirlerr.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bd0.c -o bd0.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma.c -o gamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgamma.c -o lgamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma_cody.c -o gamma_cody.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c beta.c -o beta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lbeta.c -o lbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c polygamma.c -o polygamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cospi.c -o cospi.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_i.c -o bessel_i.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_j.c -o bessel_j.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_k.c -o bessel_k.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_y.c -o bessel_y.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c choose.c -o choose.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c snorm.c -o snorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sexp.c -o sexp.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgamma.c -o dgamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgamma.c -o pgamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgamma.c -o qgamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgamma.c -o rgamma.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbeta.c -o dbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbeta.c -o pbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbeta.c -o qbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbeta.c -o rbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dunif.c -o dunif.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c punif.c -o punif.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qunif.c -o qunif.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c runif.c -o runif.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnorm.c -o dnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnorm.c -o pnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnorm.c -o qnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnorm.c -o rnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlnorm.c -o dlnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plnorm.c -o plnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlnorm.c -o qlnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlnorm.c -o rlnorm.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c df.c -o df.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pf.c -o pf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qf.c -o qf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rf.c -o rf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnf.c -o dnf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dt.c -o dt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pt.c -o pt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qt.c -o qt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rt.c -o rt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnt.c -o dnt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dchisq.c -o dchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pchisq.c -o pchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qchisq.c -o qchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rchisq.c -o rchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnchisq.c -o rnchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbinom.c -o dbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbinom.c -o pbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbinom.c -o qbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbinom.c -o rbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rmultinom.c -o rmultinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dcauchy.c -o dcauchy.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pcauchy.c -o pcauchy.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qcauchy.c -o qcauchy.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rcauchy.c -o rcauchy.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dexp.c -o dexp.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pexp.c -o pexp.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qexp.c -o qexp.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rexp.c -o rexp.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgeom.c -o dgeom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgeom.c -o pgeom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgeom.c -o qgeom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgeom.c -o rgeom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dhyper.c -o dhyper.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c phyper.c -o phyper.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qhyper.c -o qhyper.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rhyper.c -o rhyper.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbinom.c -o dnbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbinom.c -o pnbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom.c -o qnbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom_mu.c -o qnbinom_mu.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnbinom.c -o rnbinom.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dpois.c -o dpois.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ppois.c -o ppois.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qpois.c -o qpois.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpois.c -o rpois.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dweibull.c -o dweibull.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pweibull.c -o pweibull.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qweibull.c -o qweibull.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rweibull.c -o rweibull.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlogis.c -o dlogis.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plogis.c -o plogis.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlogis.c -o qlogis.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlogis.c -o rlogis.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnchisq.c -o dnchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnchisq.c -o pnchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnchisq.c -o qnchisq.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbeta.c -o dnbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbeta.c -o pnbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbeta.c -o qnbeta.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnf.c -o pnf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnt.c -o pnt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnf.c -o qnf.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnt.c -o qnt.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ptukey.c -o ptukey.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qtukey.c -o qtukey.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c toms708.c -o toms708.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c wilcox.c -o wilcox.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c signrank.c -o signrank.o gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c mlutils.c -o mlutils.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c d1mach.c -o d1mach.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c i1mach.c -o i1mach.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmax2.c -o fmax2.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fmin2.c -o fmin2.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fprec.c -o fprec.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fround.c -o fround.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ftrunc.c -o ftrunc.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sign.c -o sign.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c fsign.c -o fsign.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imax2.c -o imax2.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c imin2.c -o imin2.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c chebyshev.c -o chebyshev.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c log1p.c -o log1p.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgammacor.c -o lgammacor.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gammalims.c -o gammalims.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c stirlerr.c -o stirlerr.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bd0.c -o bd0.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma.c -o gamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lgamma.c -o lgamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c gamma_cody.c -o gamma_cody.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c beta.c -o beta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c lbeta.c -o lbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c polygamma.c -o polygamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c cospi.c -o cospi.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_i.c -o bessel_i.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_j.c -o bessel_j.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_k.c -o bessel_k.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c bessel_y.c -o bessel_y.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c choose.c -o choose.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c snorm.c -o snorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c sexp.c -o sexp.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgamma.c -o dgamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgamma.c -o pgamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgamma.c -o qgamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgamma.c -o rgamma.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbeta.c -o dbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbeta.c -o pbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbeta.c -o qbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbeta.c -o rbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dunif.c -o dunif.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c punif.c -o punif.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qunif.c -o qunif.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c runif.c -o runif.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnorm.c -o dnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnorm.c -o pnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnorm.c -o qnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnorm.c -o rnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlnorm.c -o dlnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plnorm.c -o plnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlnorm.c -o qlnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlnorm.c -o rlnorm.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c df.c -o df.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pf.c -o pf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qf.c -o qf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rf.c -o rf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnf.c -o dnf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dt.c -o dt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pt.c -o pt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qt.c -o qt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rt.c -o rt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnt.c -o dnt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dchisq.c -o dchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pchisq.c -o pchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qchisq.c -o qchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rchisq.c -o rchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnchisq.c -o rnchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dbinom.c -o dbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pbinom.c -o pbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qbinom.c -o qbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rbinom.c -o rbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rmultinom.c -o rmultinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dcauchy.c -o dcauchy.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pcauchy.c -o pcauchy.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qcauchy.c -o qcauchy.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rcauchy.c -o rcauchy.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dexp.c -o dexp.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pexp.c -o pexp.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qexp.c -o qexp.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rexp.c -o rexp.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dgeom.c -o dgeom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pgeom.c -o pgeom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qgeom.c -o qgeom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rgeom.c -o rgeom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dhyper.c -o dhyper.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c phyper.c -o phyper.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qhyper.c -o qhyper.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rhyper.c -o rhyper.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbinom.c -o dnbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbinom.c -o pnbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom.c -o qnbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbinom_mu.c -o qnbinom_mu.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rnbinom.c -o rnbinom.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dpois.c -o dpois.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ppois.c -o ppois.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qpois.c -o qpois.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rpois.c -o rpois.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dweibull.c -o dweibull.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pweibull.c -o pweibull.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qweibull.c -o qweibull.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rweibull.c -o rweibull.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dlogis.c -o dlogis.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c plogis.c -o plogis.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qlogis.c -o qlogis.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c rlogis.c -o rlogis.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnchisq.c -o dnchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnchisq.c -o pnchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnchisq.c -o qnchisq.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c dnbeta.c -o dnbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnbeta.c -o pnbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnbeta.c -o qnbeta.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnf.c -o pnf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c pnt.c -o pnt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnf.c -o qnf.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qnt.c -o qnt.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c ptukey.c -o ptukey.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c qtukey.c -o qtukey.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c toms708.c -o toms708.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c wilcox.c -o wilcox.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c signrank.c -o signrank.lo gcc -std=gnu23 -I. -I../../../src/include -I../../../src/include -I./.. -I/usr/local/include -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -c std_unif.c -o std_unif.lo gcc -std=gnu23 -shared -fopenmp -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -o libRmath.so mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo qnbinom_mu.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath/standalone' + make pdf make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... 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This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2024-06-01> patch level 2 L3 programming layer <2024-08-30> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2024/02/08 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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(/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fonts/map/pdftex/updmap/pdftex.map}{/usr/share/texlive/texmf- dist/fonts/enc/dvips/base/8r.enc}] No file fullrefman.toc. [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1pcr.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsa.fd) (/usr/share/texlive/texmf-dist/tex/latex/amsfonts/umsb.fd) (/usr/share/texlive/texmf-dist/tex/latex/jknapltx/ursfs.fd) [3] [4] Underfull \hbox (badness 6741) in paragraph at lines 144--150 []\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/ 10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4805) in paragraph at lines 144--150 \T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/ n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is Underfull \hbox (badness 4316) in paragraph at lines 144--150 \T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth -er-wise, it is []\T1/pcr/m/n/10 (double.base ^ Underfull \hbox (badness 4454) in paragraph at lines 150--158 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 1028) in paragraph at lines 150--158 \T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base Underfull \hbox (badness 2980) in paragraph at lines 150--158 []\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base Underfull \hbox (badness 1394) in paragraph at lines 150--158 \T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As [5] Underfull \hbox (badness 1142) in paragraph at lines 220--225 []\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [ ]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 (value Underfull \hbox (badness 1478) in paragraph at lines 220--225 []\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t his is the type used by Underfull \hbox (badness 1484) in paragraph at lines 227--232 []\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][] []\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is Underfull \hbox (badness 3009) in paragraph at lines 236--248 []\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel y anal-o-gously to their [6] Underfull \hbox (badness 5652) in paragraph at lines 256--261 []\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/ n/10 long double[]\T1/ptm/m/n/10 ' C type which is Underfull \hbox (badness 6691) in paragraph at lines 256--261 \T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty pe --- this hap-pens on ARM CPUs. In that case Underfull \hbox (badness 1521) in paragraph at lines 256--261 [][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4, [7] Underfull \hbox (badness 10000) in paragraph at lines 376--380 [][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l ar, [8] [9] [10] Underfull \hbox (badness 1072) in paragraph at lines 576--582 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [11] Overfull \hbox (4.38043pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v alue = TRUE)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 646--646 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i gnore.case = TRUE)[] [12] [13] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (60.78088pt too wide) in paragraph at lines 778--778 [] \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g iveErr = FALSE)[] [14] [15] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 938--938 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 959--959 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 987--987 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is bar, current is numeric"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 988--988 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class = FALSE) # TRUE[] Underfull \vbox (badness 10000) has occurred while \output is active [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1013--1013 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE) [18] [19] [20] [21] [22] [23] [24] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [25{/usr/share/texlive/texmf-dist/fonts/enc/dvips/cm-super/cm-super-ts1.enc}] Underfull \hbox (badness 1221) in paragraph at lines 1553--1560 []\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x %/% y := [26] Underfull \hbox (badness 10000) in paragraph at lines 1642--1647 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [27] [28] [29] [30] Underfull \vbox (badness 10000) has occurred while \output is active [31] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1987--1987 [] \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em pty.names = TRUE,[] Underfull \hbox (badness 1303) in paragraph at lines 2019--2022 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] [33] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 names(dL <- as.data.frame(L)) # "NA."[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 names(dL1 <- as.data.frame(L, col.names = names(L))) # "NA."[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 names(dL1.<- as.data.frame(L, check.name s=FALSE)) # "NA"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/9 names(dL2 <- as.data.frame(L, col.names = names(L), check.name s=FALSE)) # NA[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2116--2116 []\T1/pcr/m/n/9 names(dLn <- as.data.frame(L, new.names = TRUE, check.name s=FALSE)) # NA[] [34] [35] [36] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2306--2306 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] Underfull \hbox (badness 10000) in paragraph at lines 2344--2346 []\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which an [37] [38] [39] [40] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2620--2620 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] Overfull \hbox (121.828pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/9 if(file.exists(tab)) { # typically on Windows; on Linux when \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 configure --with-internal-tzcode\TS1/cmtt/m/n/9 `[] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2828--2830 []\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n /10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see [44] [45] [46] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2997--2997 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [47] [48] [49] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3215--3215 []\T1/pcr/m/n/9 try( attr(S, "foo") <- NA ) # no longer possible to mutate pri mitive functions[] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3472--3475 []\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x, [53] [54] [55] [56] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3778--3778 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, lwd = 1, bty="n")[] [57] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3809--3809 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = "" , type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3810--3810 [] \T1/pcr/m/n/9 main = "Bessel Functions J_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3817--3817 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab = "", type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3818--3818 [] \T1/pcr/m/n/9 main = "Bessel Functions K_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3821--3821 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5, sep = ", ")),[] Underfull \vbox (badness 10000) has occurred while \output is active [58] [59] [60] [61] [62] [63] [64] Underfull \hbox (badness 10000) in paragraph at lines 4268--4270 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [65] [66] [67] [68] [69] [70] [71] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4754--4754 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat" , "function",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4755--4755 [] \T1/pcr/m/n/9 "(", "{", "[", "<-", "<<-", "->", "=")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4756--4756 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap ply(E, call) ..[] Overfull \hbox (73.22806pt too wide) in paragraph at lines 4757--4757 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<- \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character , ""))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4758--4758 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \( F) sapply(L, F))))[] [72] Underfull \hbox (badness 4927) in paragraph at lines 4826--4830 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an ob-ject Underfull \hbox (badness 2012) in paragraph at lines 4826--4830 \T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o r [73] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4910--4910 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [74] Underfull \hbox (badness 4595) in paragraph at lines 4984--4987 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [75] [76] [77] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{ ", 1:10, "}:"))[] Underfull \hbox (badness 1199) in paragraph at lines 5179--5185 []\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na med ar-gu- Underfull \hbox (badness 2573) in paragraph at lines 5191--5194 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [78] [79] [80] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5364--5364 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [81] [82] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5538--5538 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc" "c(\" x\", \"y\")"[] [83] Underfull \hbox (badness 2521) in paragraph at lines 5626--5628 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [84] [85] [86] [87] [88] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5920--5920 []\T1/pcr/m/n/9 ## another example, this time with positive, negative, and zer o eigenvalues[] [89] [90] [91] Underfull \hbox (badness 1270) in paragraph at lines 6145--6153 []\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first", [92] [93] [94] [95] [96] [97] [98] [99] Underfull \hbox (badness 1796) in paragraph at lines 6726--6734 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / / [100] [101] [102] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N A_complex_),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6943--6943 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile r, math-library:[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 6945--6945 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [103] [104] Underfull \hbox (badness 1205) in paragraph at lines 7087--7092 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 errorCondition []\T1/ptm/m/n/10 can be used to con-struct er-ror con-di-tions of a par-tic-u- [105] Underfull \hbox (badness 1635) in paragraph at lines 7151--7154 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n /10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 7155--7158 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing [106] Underfull \hbox (badness 1308) in paragraph at lines 7198--7206 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should [107] [108] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7369--7369 []\T1/pcr/m/n/10 zstdfile(description, open = "", encoding = getOption("encodi ng"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7372--7372 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [109] Underfull \hbox (badness 4505) in paragraph at lines 7424--7427 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [110] Underfull \hbox (badness 10000) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 zstdfile[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1092) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 socketAcce pt []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 serverSocket []\T1/ptm/m/n/10 re-turn a con-nec-tion ob-ject [111] [112] [113] [114] Underfull \hbox (badness 10000) in paragraph at lines 7823--7825 []\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in g from Underfull \hbox (badness 3302) in paragraph at lines 7865--7872 []\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n /10 only. This [115] [116] [117] Underfull \vbox (badness 10000) has occurred while \output is active [118] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8115--8115 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [119] [120] [121] [122] [123] Underfull \hbox (badness 10000) in paragraph at lines 8477--8479 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [124] [125] [126] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8637--8637 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] [127] [128] [129] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8872--8872 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [130] [131] Underfull \hbox (badness 10000) in paragraph at lines 8988--8998 []\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 1975) in paragraph at lines 8988--8998 [][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As that is a generic func-tion, meth-ods can be [132] [133] [134] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9156--9156 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 9501--9513 \T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m /n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and [139] [140] [141] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9728--9728 []\T1/pcr/m/n/9 ## Omitting "tzone" attrib, numeric matrix w/ 10 columns (27 x 10, currently) :[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 9730--9730 []\T1/pcr/m/n/9 stopifnot(identical(ncol(leapm), 10L), is.numeric(leapm)) # wa s character in R <= 4.6.0[] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10158--10158 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10160--10160 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO !\n"); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10188--10188 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10189--10189 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [149] [150] Underfull \hbox (badness 5403) in paragraph at lines 10317--10319 []\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b y Underfull \hbox (badness 6063) in paragraph at lines 10336--10338 []\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m /n/10 formula[][][][]\T1/ptm/m/n/10 s, with [151] [152] [153] Underfull \hbox (badness 1603) in paragraph at lines 10566--10569 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11042--11042 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [161] [162] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11161--11161 []\T1/pcr/m/n/10 provideDimnames(x, sep = "", base = list(. = LETTERS), unique = TRUE,[] [163] Underfull \hbox (badness 1917) in paragraph at lines 11212--11217 []\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has Overfull \hbox (36.7804pt too wide) in paragraph at lines 11268--11268 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE RS)))) # recycling[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11269--11269 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [164] [165] Underfull \hbox (badness 1168) in paragraph at lines 11378--11383 []\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\ T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by [166] [167] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11478--11478 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n ames(list(...));[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 11480--11480 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [168] Underfull \hbox (badness 2828) in paragraph at lines 11600--11605 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19 85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr /m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ pcr/m/n/10 https : [169] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11631--11631 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [170] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11706--11706 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] [171] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11783--11783 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4) # scalar product - w/o drop(.), would retur n 1x1 matrix[] [172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11864--11864 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [173] [174] [175] Underfull \hbox (badness 6396) in paragraph at lines 12064--12072 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 10000) in paragraph at lines 12073--12075 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [176] [177] [178] Underfull \hbox (badness 10000) in paragraph at lines 12291--12294 []\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2744) in paragraph at lines 12740--12742 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see Overfull \hbox (20.58041pt too wide) in paragraph at lines 12763--12763 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [186] [187] [188] Underfull \hbox (badness 5288) in paragraph at lines 13017--13019 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of Underfull \hbox (badness 3039) in paragraph at lines 13027--13032 []\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1 0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt m/m/n/10 and [189] Underfull \hbox (badness 10000) in paragraph at lines 13084--13087 []\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 13102--13104 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [190] [191] [192] [193] Underfull \hbox (badness 10000) in paragraph at lines 13353--13355 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc r/m/n/10 where []\T1/ptm/m/n/10 as Underfull \hbox (badness 5970) in paragraph at lines 13395--13397 []\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/ n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1 /ptm/m/n/10 is true, oth-er-wise [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14223--14223 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14967--14969 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 15002--15005 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [216] [217] Underfull \hbox (badness 2573) in paragraph at lines 15139--15141 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 fsep = [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 15300--15302 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [220] [221] Underfull \hbox (badness 10000) in paragraph at lines 15421--15425 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15432--15435 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Overfull \hbox (47.58038pt too wide) in paragraph at lines 15453--15453 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [222] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15479--15479 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [223] Underfull \hbox (badness 10000) in paragraph at lines 15575--15578 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/ ptm/m/n/10 , Overfull \hbox (9.78043pt too wide) in paragraph at lines 15585--15585 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [224] Underfull \hbox (badness 10000) in paragraph at lines 15651--15654 []\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d i-tion ob-ject of class Overfull \hbox (20.58041pt too wide) in paragraph at lines 15668--15668 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [225] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15697--15697 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Overfull \hbox (6.78088pt too wide) in paragraph at lines 15698--15698 [] \T1/pcr/m/n/10 left.open = FALSE, checkSorted = TRUE, checkNA = TRUE)[] [226] Underfull \hbox (badness 3965) in paragraph at lines 15736--15740 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15906--15906 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15907--15907 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [229] [230] [231] [232] Overfull \hbox (63.78036pt too wide) in paragraph at lines 16150--16150 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have type symbol (aka name).[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16153--16153 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [233] Underfull \hbox (badness 1331) in paragraph at lines 16242--16246 []\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 16242--16246 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see Underfull \hbox (badness 10000) in paragraph at lines 16249--16249 []\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , [234] Underfull \hbox (badness 1152) in paragraph at lines 16319--16327 \T1/ptm/m/n/10 stead of []\T1/pcr/m/n/10 format.default(x, ...) []\T1/ptm/m/n/1 0 in \T1/phv/m/n/10 R \T1/ptm/m/n/10 <= 4.5.z) to each el-e-ment of the list (a f-ter Underfull \hbox (badness 6944) in paragraph at lines 16340--16343 [][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 , [235] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16370--16370 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [236] [237] Underfull \hbox (badness 10000) in paragraph at lines 16508--16510 []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p os-si-bly for-mat-ted) num-bers, also in Overfull \hbox (48.78088pt too wide) in paragraph at lines 16528--16528 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16534--16534 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] [238] Underfull \hbox (badness 2790) in paragraph at lines 16541--16544 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for Underfull \hbox (badness 1024) in paragraph at lines 16572--16579 []\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n /10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give [239] Underfull \hbox (badness 10000) in paragraph at lines 16648--16650 []\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/pcr/m/n/10 .format.zeros(*, Underfull \hbox (badness 10000) in paragraph at lines 16670--16675 []\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 2426) in paragraph at lines 16676--16678 []\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10 formatC(123.45, mode = [240] Underfull \hbox (badness 10000) in paragraph at lines 16687--16695 []\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret- ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n /10 can be com-plex (or [241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16796--16796 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big .mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] Underfull \vbox (badness 10000) has occurred while \output is active [242] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16818--16818 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] [243] [244] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17005--17005 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif y = TRUE) [245] [246] [247] [248] [249] [250] [251] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17491--17491 []\T1/pcr/m/n/9 ## very low-level: get()ing the "missing argument", e.g., insi de browser()[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17502--17502 [] \T1/pcr/m/n/9 is.symbol(E$m) # => valid argument to get(), and *also* ge ts \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 missing arg\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] [252] [253] [254] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17684--17684 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [255] Underfull \hbox (badness 2418) in paragraph at lines 17793--17797 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [256] Underfull \hbox (badness 6510) in paragraph at lines 17800--17803 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR UE[]\T1/ptm/m/n/10 , then the sin-gle Underfull \hbox (badness 2326) in paragraph at lines 17837--17844 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][] \T1/ptm/m/n/10 , [257] [258] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17998--17998 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in R-pkg.pot as[] [259] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18019--18019 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f actory" default[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18022--18022 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18052--18052 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [260] [261] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18190--18190 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18193--18193 []\T1/pcr/m/n/10 grepv(pattern, x, ignore.case = FALSE, perl = FALSE, value = TRUE,[] Underfull \hbox (badness 1867) in paragraph at lines 18221--18228 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [263] [264] [265] [266] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18552--18552 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] [267] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18581--18581 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [268] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18637--18637 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [269] [270] [271] [272] [273] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19020--19020 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z < - c(2, 1:9))) [274] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19085--19085 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [275] [276] [277] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19299--19299 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [278] [279] Underfull \hbox (badness 1360) in paragraph at lines 19462--19466 []\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon ly known as `Latin 9', Underfull \hbox (badness 1210) in paragraph at lines 19462--19466 \T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/1 0 "latin9" []\T1/ptm/m/n/10 but GNU [280] [281] [282] Underfull \hbox (badness 1163) in paragraph at lines 19682--19684 []\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1 0 https : / / unicode-[]org . github . io / icu / Overfull \hbox (9.78043pt too wide) in paragraph at lines 19690--19690 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s ettings, we can only reset to the default.[] [283] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19720--19720 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [284] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19814--19814 [] \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se t = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19815--19815 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [285] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19869--19869 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19875--19875 []\T1/pcr/m/n/9 identical(f, g) # TRUE, as bytecode is ignored by default[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19878--19878 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share an environment:[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19884--19884 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [286] [287] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20012--20012 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20020--20020 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] [288] [289] [290] Underfull \hbox (badness 10000) in paragraph at lines 20227--20229 []\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T 1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and [291] [292] Underfull \hbox (badness 2057) in paragraph at lines 20330--20356 [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [293] [294] Underfull \hbox (badness 10000) in paragraph at lines 20528--20535 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [295] [296] [297] Underfull \hbox (badness 4699) in paragraph at lines 20728--20731 []\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , [298] [299] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20862--20862 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [300] [301] Underfull \hbox (badness 4739) in paragraph at lines 20999--21001 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [302] Overfull \hbox (36.7804pt too wide) in paragraph at lines 21054--21054 []\T1/pcr/m/n/9 isSymmetric(D3) # FALSE (as row and co lumn names differ)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21055--21055 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [303] [304] Overfull \hbox (48.78088pt too wide) in paragraph at lines 21171--21171 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl o = "U", ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 21173--21173 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U ", ...)[] [305] Underfull \hbox (badness 2961) in paragraph at lines 21258--21261 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [306] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21319--21319 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val ue & meaning)}:[] [307] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21341--21341 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in solve().. m ust be square[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21343--21343 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular { and norm != "2"}:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21363--21363 [] \T1/pcr/m/n/9 inv_z = solve(A, tol = 1e-19))) # 5.22057e16 on x86_ 64 Linux with GCC[] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 1975) in paragraph at lines 21769--21772 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [314] [315] [316] [317] [318] [319] Underfull \hbox (badness 1077) in paragraph at lines 22192--22197 []\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T 1/ptm/m/n/10 and [320] Underfull \hbox (badness 10000) in paragraph at lines 22206--22213 [][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs / [321] Underfull \hbox (badness 1112) in paragraph at lines 22279--22288 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2970) in paragraph at lines 22337--22340 []\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a Underfull \hbox (badness 2951) in paragraph at lines 22337--22340 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [322] [323] Underfull \hbox (badness 10000) in paragraph at lines 22451--22455 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 22451--22455 [][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self Underfull \hbox (badness 1221) in paragraph at lines 22456--22463 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m /n/10 ar-gu-ment, it lists all avail-able pack- [324] [325] Underfull \hbox (badness 10000) in paragraph at lines 22586--22593 [][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , [] [][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/ m/n/10 , [326] Underfull \hbox (badness 10000) in paragraph at lines 22707--22711 []\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n /10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use [327] [328] [329] [330] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22947--22947 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22952--22952 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] [331] Underfull \hbox (badness 3343) in paragraph at lines 23016--23020 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/ m/n/10 for many more file han-dling func-tions and [332] [333] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] [334] Overfull \hbox (20.58041pt too wide) in paragraph at lines 23172--23172 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [335] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23283--23283 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the same names ![] Overfull \hbox (74.58035pt too wide) in paragraph at lines 23286--23286 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] [336] Underfull \hbox (badness 6380) in paragraph at lines 23333--23341 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [337] Underfull \hbox (badness 2564) in paragraph at lines 23437--23440 []\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/ ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of [338] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23480--23480 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8") # Linux, macOS, other Unix-alikes[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23484--23484 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German [] Overfull \hbox (42.18039pt too wide) in paragraph at lines 23488--23488 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p latform specific ?)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 23495--23495 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C") # turn off loca le-specific sorting,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23497--23497 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [339] [340] [341] Underfull \hbox (badness 1400) in paragraph at lines 23676--23680 [][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[] [][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m /n/10 double[][][] []\T1/ptm/m/n/10 (class [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] Overfull \hbox (17.27832pt too wide) in paragraph at lines 24450--24450 [] \TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 %notin%\TS1/cmtt/m/n/10 ` \T1/pcr/m/n/10 <- function(x, table) match(x, table, nomatch = 0L) == 0L[] [353] [354] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24558--24558 []\T1/pcr/m/n/9 zM ##--> many "NA" matches (= 1) and four non-NAs (3 different ones: 7,9,10)[] [355] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24658--24658 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 24660--24660 []\T1/pcr/m/n/9 ## New (2025-\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 26) option several. ok = "all" (or "all.match", "all_must_match", "all*" ..):[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24663--24663 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = FALSE)) # Error: ... \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 arg\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 must be of length 1[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24665--24665 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = "all")) # Error: ... should be one of "b", "c"[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24667--24667 []\T1/pcr/m/n/9 (m1 <- match.arg(abcd, letters, several.ok = TRUE )) # " a" "b" "c" "d"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 24671--24671 [] \T1/pcr/m/n/9 identical(abcd, match.arg(abcd, abcd, several.ok = " all_must_match")))[] [356] Underfull \hbox (badness 1655) in paragraph at lines 24705--24709 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [357] [358] [359] Underfull \hbox (badness 1292) in paragraph at lines 24959--24962 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, [] [][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [360] [361] [362] [363] [364] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25269--25269 []\T1/pcr/m/n/10 memCompress(from, type = c("gzip", "bzip2", "xz", "zstd", "no ne")) [365] [366] [367] [368] [369] Underfull \hbox (badness 1014) in paragraph at lines 25591--25599 \T1/ptm/m/n/10 al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 https : / / lea rn . microsoft . com / en-[]gb / windows / Underfull \hbox (badness 10000) in paragraph at lines 25591--25599 \T1/pcr/m/n/10 desktop / Memory / physical-[]address-[]extension$[][] \T1/ptm/m /n/10 and [][]$\T1/pcr/m/n/10 https : / / learn . [370] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25665--25665 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 1448) in paragraph at lines 26219--26227 []\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive = [379] Underfull \hbox (badness 3849) in paragraph at lines 26336--26341 []\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter- nally to a char-ac-ter vec-tor (so meth-ods for [380] Underfull \hbox (badness 2165) in paragraph at lines 26414--26420 []\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, Underfull \hbox (badness 1199) in paragraph at lines 26414--26420 \T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\ T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env, Underfull \hbox (badness 3148) in paragraph at lines 26414--26420 \T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi -ron-ment is used as a hash ta-ble, [381] [382] [383] Underfull \hbox (badness 2237) in paragraph at lines 26579--26581 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [384] [385] [386] Underfull \hbox (badness 6188) in paragraph at lines 26807--26810 []\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by [387] [388] [389] Underfull \hbox (badness 1521) in paragraph at lines 27000--27014 \T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 and in case of an er-ror (such as in-suf-fi-cient per- [390] [391] [392] [393] Underfull \hbox (badness 2197) in paragraph at lines 27318--27322 []\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s tartup mes-sages given by Underfull \hbox (badness 4048) in paragraph at lines 27318--27322 []\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use [394] Underfull \hbox (badness 2846) in paragraph at lines 27332--27336 []\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab out the pack- Underfull \hbox (badness 1990) in paragraph at lines 27332--27336 \T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c om-puted pack-age in-for-ma-tion ob-ject and pass this to Overfull \hbox (12.78088pt too wide) in paragraph at lines 27376--27376 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ e.only) Overfull \hbox (0.78088pt too wide) in paragraph at lines 27380--27380 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [395] Underfull \hbox (badness 3568) in paragraph at lines 27428--27434 []\T1/ptm/m/n/10 Argument []\T1/pcr/m/n/10 versionCheck []\T1/ptm/m/n/10 al-low s to re-quire a names-pace with re-stricted (e.g., min-i- Underfull \hbox (badness 2096) in paragraph at lines 27428--27434 \T1/ptm/m/n/10 mal or max-i-mal) pack-age ver-sion ([][][]\T1/pcr/m/n/10 packag eVersion[][][]()[]\T1/ptm/m/n/10 ). If the ver-sion check fails, Underfull \hbox (badness 10000) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space it loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram e con-tain-ing the ex-ported val-ues of a Underfull \hbox (badness 10000) in paragraph at lines 27459--27461 []\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in% [396] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27526--27526 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/ n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangeably here:[] [397] [398] [399] Underfull \hbox (badness 8189) in paragraph at lines 27726--27732 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/ m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode[][][] [400] [401] [402] Underfull \hbox (badness 2591) in paragraph at lines 27952--27960 \T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and [403] [404] [405] [406] [407] Underfull \hbox (badness 1603) in paragraph at lines 28239--28241 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [408] Underfull \hbox (badness 1210) in paragraph at lines 28374--28383 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [409] [410] [411] Underfull \hbox (badness 3271) in paragraph at lines 28601--28604 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [412] [413] [414] Underfull \hbox (badness 3138) in paragraph at lines 28921--28927 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 2088) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by [415] Underfull \hbox (badness 1389) in paragraph at lines 28960--28962 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28993--28999 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 29008--29013 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 1009) in paragraph at lines 29026--29029 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [416] Underfull \hbox (badness 10000) in paragraph at lines 29042--29045 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see [417] [418] [419] [420] [421] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29431--29431 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec, 300X faster[] Underfull \hbox (badness 10000) in paragraph at lines 29444--29448 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [422] [423] Underfull \hbox (badness 1210) in paragraph at lines 29593--29596 []\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex t=s, [424] [425] [426] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29790--29790 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] Underfull \hbox (badness 1478) in paragraph at lines 29820--29825 \T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n /10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string, [427] Underfull \hbox (badness 7133) in paragraph at lines 29880--29886 [][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with Overfull \hbox (42.18039pt too wide) in paragraph at lines 29902--29902 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29914--29914 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] [428] Overfull \hbox (17.87582pt too wide) in paragraph at lines 29927--29927 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/ m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 { }\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0) here[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29930--29930 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29931--29931 []\T1/pcr/m/n/9 ## recycling resulting in zero-length result character(0):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29934--29934 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # -> ".. value is -- not .."[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29935--29935 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29938--29938 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|") # |-- > "foo bar"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29940--29940 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string), "" r esults always[] [429] [430] [431] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30129--30129 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow() # same as nrow(subset(mt cars, cyl == 4))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30147--30147 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [432] Underfull \hbox (badness 1360) in paragraph at lines 30202--30206 []\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn- ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type = [433] [434] [435] [436] Underfull \hbox (badness 2277) in paragraph at lines 30517--30523 \T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing [437] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30552--30552 [] \T1/pcr/m/n/10 (min.n = 1, shrink.sml = 0.25, high.u.bias = 0.8, u5.bias = 1.7,[] [438] Underfull \hbox (badness 1701) in paragraph at lines 30647--30651 []\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/ pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\ T1/pcr/m/n/10 get[][][](name, envir = [439] Underfull \hbox (badness 1796) in paragraph at lines 30716--30719 []\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [440] [441] [442] [443] Underfull \hbox (badness 10000) in paragraph at lines 30928--30931 []\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion [444] Overfull \hbox (47.58038pt too wide) in paragraph at lines 30999--30999 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in "exponential" format[] [445] [446] [447] [448] [449] [450] [451] Underfull \hbox (badness 2961) in paragraph at lines 31487--31490 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [452] [453] Overfull \hbox (25.98041pt too wide) in paragraph at lines 31642--31642 [] \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = rep(c(0,0,1),2))[] [454] [455] [456] [457] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31938--31938 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3 \u147b\u203c")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31949--31949 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31960--31960 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow ed (parse errors)[] Underfull \vbox (badness 10000) has occurred while \output is active [458] [459] Underfull \hbox (badness 7415) in paragraph at lines 32057--32063 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use Overfull \hbox (42.18039pt too wide) in paragraph at lines 32081--32081 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [460] Overfull \hbox (6.78088pt too wide) in paragraph at lines 32127--32127 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [461] [462] Underfull \hbox (badness 3713) in paragraph at lines 32273--32284 []\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm /m/n/10 (not [463] [464] Underfull \hbox (badness 6284) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Source code for-merly at []\T1/pcr/m/n/10 http://www.math.keio.a c.jp/~matumoto/emt.html[]\T1/ptm/m/n/10 . Underfull \hbox (badness 2932) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 https : / / www . math . sci . hiros hima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [465] Underfull \hbox (badness 1533) in paragraph at lines 32550--32553 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [466] [467] [468] Overfull \hbox (42.78088pt too wide) in paragraph at lines 32704--32704 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] Underfull \hbox (badness 1038) in paragraph at lines 32722--32733 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [469] [470] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32873--32873 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide ntical(X, X.))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 32875--32875 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument of deparse()[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 32876--32876 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "list")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32877--32877 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32878--32878 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32885--32885 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [471] [472] [473] [474] [475] Overfull \hbox (25.98041pt too wide) in paragraph at lines 33195--33195 []\T1/pcr/m/n/9 ## Bit representation [ sign | exponent | mantissa ] of doubl e prec numbers :[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 33197--33197 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) { # split one double[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33207--33207 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits (numToInts(x)), raw(64L))[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33208--33208 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] Underfull \vbox (badness 10000) has occurred while \output is active [476] [477] Underfull \hbox (badness 4048) in paragraph at lines 33302--33307 []\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor to Underfull \hbox (badness 4582) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the mode: Underfull \hbox (badness 1824) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/ 10 , [478] [479] [480] [481] [482] [483] [484] [485] Underfull \hbox (badness 2080) in paragraph at lines 33844--33854 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n /10 (ver-sion num-ber, cur-rently 2 or 3), Overfull \hbox (4.38043pt too wide) in paragraph at lines 33881--33881 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 7558) in paragraph at lines 34406--34410 []\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1968) in paragraph at lines 34416--34418 []\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P OSIX stan-dard, and the [493] Underfull \hbox (badness 10000) in paragraph at lines 34427--34429 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / Underfull \hbox (badness 1975) in paragraph at lines 34430--34434 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m /n/10 https : / / www . [494] [495] [496] [497] [498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 34807--34807 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [499] Underfull \hbox (badness 10000) in paragraph at lines 34885--34889 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [500] [501] [502] [503] Underfull \hbox (badness 2302) in paragraph at lines 35118--35121 []\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu- ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant Underfull \hbox (badness 1824) in paragraph at lines 35118--35121 \T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/ 10 round(x, dig - [504] [505] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35250--35250 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35253--35253 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35260--35260 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [506] [507] [508] [509] [510] [511] [512] Overfull \hbox (66.78088pt too wide) in paragraph at lines 35709--35709 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [513] [514] [515] [516] [517] [518] Overfull \hbox (12.78088pt too wide) in paragraph at lines 36155--36155 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [519] [520] Underfull \hbox (badness 1158) in paragraph at lines 36259--36264 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [521] [522] Overfull \hbox (15.18042pt too wide) in paragraph at lines 36445--36445 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [523] [524] [525] [526] Underfull \hbox (badness 4752) in paragraph at lines 36707--36710 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/ m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 . Underfull \hbox (badness 5563) in paragraph at lines 36711--36717 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2 , ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment [527] Underfull \hbox (badness 1845) in paragraph at lines 36821--36824 []\T1/ptm/m/n/10 A vec-tor of class []\T1/pcr/m/n/10 "Date"[]\T1/ptm/m/n/10 . T ype []\T1/pcr/m/n/10 "[][]integer[][][]" []\T1/ptm/m/n/10 is of-ten pre-served on pur-pose, sav-ing [528] Overfull \hbox (31.3804pt too wide) in paragraph at lines 36842--36842 []\T1/pcr/m/n/9 ## find all 7th of the month _strictly_ inside two dates, the last being a 7th.[] [529] [530] Overfull \hbox (42.18039pt too wide) in paragraph at lines 37018--37018 []\T1/pcr/m/n/9 try(sequence(3, 1:3, 1[0], recycle = FALSE)) # an Error; defau lt will be "empty":[] [531] [532] [533] [534] [535] Underfull \hbox (badness 6094) in paragraph at lines 37362--37366 []\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use Underfull \hbox (badness 6559) in paragraph at lines 37362--37366 \T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo nd-ing to the row names of the ta-ble re-turned by [536] [537] Underfull \hbox (badness 3826) in paragraph at lines 37453--37464 []\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a p-pli-ca-tion as well as the Underfull \hbox (badness 3492) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules for the C run-time Underfull \hbox (badness 10000) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / cpp / c-[]language / Underfull \hbox (badness 1635) in paragraph at lines 37453--37464 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [538] [539] [540] [541] [542] [543] [544] [545] Overfull \hbox (66.78088pt too wide) in paragraph at lines 38014--38014 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [546] [547] [548] [549] Overfull \hbox (9.78043pt too wide) in paragraph at lines 38309--38309 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select = c(am, mpg))[] [550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 38347--38347 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 38349--38349 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] [551] Underfull \hbox (badness 4954) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/ pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T 1/ptm/m/n/10 , see also Underfull \hbox (badness 5050) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \ T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to [552] Overfull \hbox (20.58041pt too wide) in paragraph at lines 38503--38503 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [553] [554] [555] [556] [557] [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38875--38875 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m /n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38890--38890 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [559] [560] [561] Underfull \hbox (badness 10000) in paragraph at lines 39122--39124 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [562] [563] [564] Overfull \hbox (12.78088pt too wide) in paragraph at lines 39348--39348 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 39349--39349 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [565] [566] [567] Underfull \hbox (badness 2828) in paragraph at lines 39548--39556 []\T1/ptm/m/n/10 Stack over-flow er-rors can be caught and han-dled by ex-it-in g han-dlers es-tab-lished with [568] [569] Overfull \hbox (63.78036pt too wide) in paragraph at lines 39684--39684 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [570] Underfull \hbox (badness 6110) in paragraph at lines 39780--39790 []\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][] []\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or Underfull \hbox (badness 2635) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent Underfull \hbox (badness 1237) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the Underfull \hbox (badness 1231) in paragraph at lines 39780--39790 \T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or Underfull \hbox (badness 1112) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ). Us-ing [571] Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1496) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be Underfull \hbox (badness 1460) in paragraph at lines 39851--39858 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment [572] Overfull \hbox (4.38043pt too wide) in paragraph at lines 39910--39910 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [573] Underfull \hbox (badness 5985) in paragraph at lines 39997--40000 []\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; it can be re-trieved by Underfull \hbox (badness 1460) in paragraph at lines 39997--40000 []\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th e call stack that can be re-trieved by [574] [575] Underfull \hbox (badness 1484) in paragraph at lines 40086--40090 []\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an Overfull \hbox (60.78088pt too wide) in paragraph at lines 40146--40146 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [576] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40172--40172 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593), 2 < 2, (1:10 < 12), "a" < "b") |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40188--40188 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3. 1415))) |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40196--40196 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 {Yes, learn how to use do.c all(substitute, ...) in a powerful manner !!}[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 40198--40198 []\T1/pcr/m/n/9 bdy <- do.call(substitute, list(bdy, list(stopifnot = quote(warnifnot))))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 40199--40199 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop = quote(warning))))[] [577] Underfull \hbox (badness 1436) in paragraph at lines 40263--40267 []\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/ m/n/10 ing of sec-onds when needed. Note [578] [579] [580] [581] [582] [583] Overfull \hbox (8.42813pt too wide) in paragraph at lines 40683--40683 []\T1/pcr/m/n/9 ## time with fractional seconds (setting \TS1/cmtt/m/n/9 `\T1/ pcr/m/n/9 tz = ..\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 for reproducible output)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 40685--40685 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] Underfull \vbox (badness 10000) has occurred while \output is active [584] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40718--40718 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19 78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 7), "%a")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40719--40719 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20 00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] [585] Overfull \hbox (0.78088pt too wide) in paragraph at lines 40831--40831 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [586] [587] [588] [589] [590] Overfull \hbox (6.78088pt too wide) in paragraph at lines 41112--41112 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41156--41156 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [591] [592] [593] [594] [595] [596] [597] Overfull \hbox (52.98038pt too wide) in paragraph at lines 41612--41612 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e verything gets added.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 41615--41615 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [598] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41657--41657 []\T1/pcr/m/n/10 format(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41659--41659 [] \T1/pcr/m/n/10 print(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] [599] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41747--41747 []\T1/pcr/m/n/9 summary(penguins$body_mass) # includes quantile(), mean, and NAs (if any)[] [600] [601] [602] [603] [604] Overfull \hbox (31.3804pt too wide) in paragraph at lines 42087--42087 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [605] [606] [607] [608] Overfull \hbox (20.58041pt too wide) in paragraph at lines 42298--42298 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] Underfull \hbox (badness 2293) in paragraph at lines 42328--42334 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de- Underfull \hbox (badness 1237) in paragraph at lines 42328--42334 \T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta -tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call. Underfull \hbox (badness 4792) in paragraph at lines 42346--42351 []\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple Underfull \hbox (badness 1107) in paragraph at lines 42346--42351 []\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1 /pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 42638--42642 []\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\ T1/ptm/m/n/10 and [613] Underfull \hbox (badness 1584) in paragraph at lines 42653--42656 []\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys .frame []\T1/ptm/m/n/10 and [614] [615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 42792--42792 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [616] Overfull \hbox (19.22812pt too wide) in paragraph at lines 42872--42872 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123)) # \TS1/cmtt /m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used [617] [618] Underfull \hbox (badness 1082) in paragraph at lines 43017--43020 []\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [619] Underfull \hbox (badness 10000) in paragraph at lines 43044--43046 [][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li brary[][][](.) []\T1/ptm/m/n/10 and uses [620] [621] Underfull \hbox (badness 1038) in paragraph at lines 43211--43214 []\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or [622] [623] [624] [625] [626] [627] Underfull \hbox (badness 1442) in paragraph at lines 43595--43599 \T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout = [628] [629] [630] Underfull \hbox (badness 4096) in paragraph at lines 43855--43858 []\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin. table[][][][]\T1/ptm/m/n/10 , [631] Underfull \vbox (badness 10000) has occurred while \output is active [632] Underfull \hbox (badness 7888) in paragraph at lines 43974--43978 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/ m/n/10 length(bin) > [633] [634] [635] [636] Overfull \hbox (63.78036pt too wide) in paragraph at lines 44237--44237 [] \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1" , "2"), c("A", "B")))),[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 44239--44239 [] \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] Overfull \hbox (55.67578pt too wide) in paragraph at lines 44241--44241 [] \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m /n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = NULL), dim=4, dimnames=list(as.character(2:5)))))[] Underfull \hbox (badness 10000) in paragraph at lines 44254--44256 []\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t hat was reg-is-tered ear-lier via [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1655) in paragraph at lines 44945--44952 \T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[] \T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1 /ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 2253) in paragraph at lines 44953--44958 []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se e the ex-am-ples for typ-i-cal cases. It may Underfull \hbox (badness 1655) in paragraph at lines 44953--44958 \T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te ms us-ing [647] Underfull \hbox (badness 4467) in paragraph at lines 45007--45016 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re- turns the time-zone names known to the cur-rently se- Underfull \hbox (badness 3954) in paragraph at lines 45007--45016 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [648] Underfull \hbox (badness 1337) in paragraph at lines 45104--45112 \T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 / usr/local/etc\T1/ptm/m/n/10 ' or Underfull \hbox (badness 10000) in paragraph at lines 45113--45116 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [649] Underfull \hbox (badness 3460) in paragraph at lines 45172--45175 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org / Underfull \hbox (badness 4429) in paragraph at lines 45176--45178 [][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol- Overfull \hbox (31.3804pt too wide) in paragraph at lines 45185--45185 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [650] [651] [652] [653] [654] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45527--45527 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15 g)\n", ncp))),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45529--45529 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [655] [656] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45626--45626 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45628--45628 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [657] [658] [659] Underfull \hbox (badness 6542) in paragraph at lines 45903--45905 []\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/ m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n /10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an d [660] [661] Overfull \hbox (30.78088pt too wide) in paragraph at lines 46025--46025 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [662] Underfull \hbox (badness 1708) in paragraph at lines 46093--46101 []\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 46093--46101 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [663] Underfull \hbox (badness 4859) in paragraph at lines 46133--46138 [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle rs and sup-press-ing the print-ing of er-ror mes-sages; [664] Underfull \hbox (badness 3895) in paragraph at lines 46195--46208 []\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in Underfull \hbox (badness 1303) in paragraph at lines 46195--46208 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "integer"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2452) in paragraph at lines 46195--46208 []\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 , [665] [666] [667] [668] [669] Overfull \hbox (9.78043pt too wide) in paragraph at lines 46551--46551 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [670] [671] [672] Underfull \hbox (badness 1137) in paragraph at lines 46690--46697 []\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") [] \T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor [673] [674] [675] [676] [677] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47072--47072 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local es and fonts[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47081--47081 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [678] Underfull \hbox (badness 1721) in paragraph at lines 47143--47160 [][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 , [679] Overfull \hbox (36.7804pt too wide) in paragraph at lines 47245--47245 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] [680] Underfull \hbox (badness 1803) in paragraph at lines 47308--47311 []\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\ T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 3471) in paragraph at lines 47312--47318 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/ n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and [681] [682] [683] Underfull \hbox (badness 1014) in paragraph at lines 47541--47544 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [684] [685] Overfull \hbox (36.78088pt too wide) in paragraph at lines 47651--47651 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [686] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47729--47729 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 47737--47737 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) # There were 105 warnings ...[] [687] Underfull \hbox (badness 1783) in paragraph at lines 47802--47804 []\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [688] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47832--47832 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w eek, yr}), ... :[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 47844--47844 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler: Date -> Matrix - dropping time info {sec,min,hour, isdst}[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 47847--47847 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] [689] Underfull \hbox (badness 10000) in paragraph at lines 47909--47914 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm /m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 2564) in paragraph at lines 47909--47914 []\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name ly a ma-trix whose rows each [690] Underfull \hbox (badness 2818) in paragraph at lines 48014--48020 []\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec- tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10 which.min(x) []\T1/ptm/m/n/10 and [691] Overfull \hbox (15.18042pt too wide) in paragraph at lines 48049--48049 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [692] Underfull \hbox (badness 1325) in paragraph at lines 48149--48152 []\T1/ptm/m/n/10 Lumley T (2003). ``Stan-dard Non-stan-dard Eval-u-a-tion Rules .'' [][]$\T1/pcr/m/n/10 https : / / developer . [693] [694] [695] [696] [697] [698] Overfull \hbox (36.7804pt too wide) in paragraph at lines 48518--48518 []\T1/pcr/m/n/9 zapsmall(c(x2, Inf), min.d=-Inf) # 0 0 .. 0 Inf -- everything is small wrt Inf[] [699] Underfull \hbox (badness 2846) in paragraph at lines 48582--48586 []\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas Overfull \hbox (4.38043pt too wide) in paragraph at lines 48622--48622 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] [700] Underfull \hbox (badness 3209) in paragraph at lines 48643--48647 []\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [701]) (./compiler-pkg.tex [702] Chapter 2. [703] Underfull \hbox (badness 2884) in paragraph at lines 107--121 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b e used to con-trol com-piler op-er-a-tion. There are cur- Underfull \hbox (badness 10000) in paragraph at lines 107--121 \T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef ined[]\T1/ptm/m/n/10 , and [704] [705] [706]) (./datasets-pkg.tex Chapter 3. [707] Underfull \hbox (badness 1199) in paragraph at lines 55--59 []\T1/ptm/m/n/10 Bartholomew DJ (1987). \T1/ptm/m/it/10 La-tent Vari-able Mod-e ls and Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Grif-fin. ISBN [708] [709] [710] [711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 303--303 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [712] Overfull \hbox (4.38043pt too wide) in paragraph at lines 379--379 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [713] [714] [715] [716] Overfull \hbox (4.38043pt too wide) in paragraph at lines 639--639 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [717] Underfull \hbox (badness 4779) in paragraph at lines 727--730 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [718] [719] Underfull \hbox (badness 4779) in paragraph at lines 872--875 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [720] [721] [722] [723] [724] Underfull \hbox (badness 4779) in paragraph at lines 1194--1197 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [725] [726] [727] [728] [729] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1515--1515 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [730] Underfull \hbox (badness 10000) in paragraph at lines 1603--1606 []\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q uarterly.revenue[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1603--1606 []\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\ T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine d from the above [731] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1702--1702 [] \T1/pcr/m/n/9 xlab = "Hip Angle", ylab = "Knee Angle", main = "\TS1/pcr /m/n/9 '\T1/pcr/m/n/9 gait\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 data : Boy 1")[] [732] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1704--1704 []\T1/pcr/m/n/9 matlines(gait[, -1, 1], gait[, -1, 2], type = "l", lty = 1, co l = adjustcolor("thistle", 1/3))[] [733] [734] Underfull \hbox (badness 4779) in paragraph at lines 1876--1879 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [735] [736] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1981--1981 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil y = binomial())[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1989--1989 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [737] [738] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr om I. virginica"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2118--2118 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r epresentation[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2122--2122 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2123--2123 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [739] [740] [741] [742] Underfull \hbox (badness 4779) in paragraph at lines 2351--2354 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [743] [744] [745] [746] [747] [748] [749] [750] [751] Underfull \hbox (badness 4779) in paragraph at lines 2939--2942 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [752] [753] [754] [755] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3209--3209 []\T1/pcr/m/n/9 summary(penguins_raw) # categorical variables are (still) cha racter vectors[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3221--3221 []\T1/pcr/m/n/9 plot(bill_dep ~ bill_len, data = penguins, pch = sym[sex], col = pal[species])[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3229--3229 []\T1/pcr/m/n/9 m <- glm(sex ~ bill_len + bill_dep + body_mass, data = adelie, family = binomial)[] [756] [757] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3341--3341 [] \T1/pcr/m/n/9 replace(names(precip.2), names(precip.2) == "Cincinnati", "Cincinati"))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3345--3345 [] \T1/pcr/m/n/9 setequal(match(c("Bismarck", "Cincinnati", "Pittsburgh"), names(precip)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3347--3347 [] \T1/pcr/m/n/9 identical(names(precip)[-c(45, 46, 52)], names(precip.O)[- c(45, 46, 52)])[] [758] [759] [760] [761] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3575--3575 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [762] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3622--3622 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x ","y","z")))[] [763] [764] [765] [766] [767] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3937--3937 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c ompact map drawing):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3939--3939 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo rdinates for AK & HI:[] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3940--3940 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] Underfull \hbox (badness 1259) in paragraph at lines 3997--4000 \T1/ptm/m/n/10 Av. Cir-cu-laire, 3, B-1180 BRUS-SELS Cur-rently at [][]$\T1/pcr /m/n/10 https : / / www . sidc . be / SILSO / [768] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4049--4049 []\T1/pcr/m/n/9 ## How to recreate the "old" sunspot.month (R <= 3.0.3) =: sun spot.month.0[] [769] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4106--4106 []\T1/pcr/m/n/9 (t2 <- c(min( end(sm)[1],end(sy)[1]), 12)) # Dec 1983 (will n ot be updated!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [770] [771] Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 \T1/pcr/m/n/10 https://oprdata.princeton.edu/archive/pefp/switz.aspx\T1/ptm/m/n /10 . While the Underfull \hbox (badness 4193) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 OPR (Of-fice of Pop-u-la-tion Re-search at Prince-ton Uni-ver-si ty) does not seem to pro- Underfull \hbox (badness 5077) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 vide these any-more, a html-simplified copy of the in-for-ma-tio n page is at [][]$\T1/pcr/m/n/10 https : [772] Underfull \hbox (badness 4779) in paragraph at lines 4265--4268 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [773] [774] [775] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4481--4481 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h ttps : / / web . archive . org / web / Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789]) (./grDevices-pkg.tex [790] Chapter 4. [791] [792] [793] [794] Underfull \hbox (badness 4752) in paragraph at lines 299--304 []\T1/ptm/m/n/10 Apart from that, []\T1/pcr/m/n/10 axisTicks() []\T1/ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/ptm/m/n/10 in Underfull \hbox (badness 2865) in paragraph at lines 299--304 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack -age func-tion [795] Overfull \hbox (9.78043pt too wide) in paragraph at lines 351--351 []\T1/pcr/m/n/9 aX(2, print(ya <- axisTicks(pu[3:4], log = TRUE))) # 10 20 50 100 (y axis)[] [796] [797] [798] Overfull \hbox (6.78088pt too wide) in paragraph at lines 543--543 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 2245) in paragraph at lines 933--938 []\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or [805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 997--997 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]], collapse = ","))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1004--1004 [] \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc ), col = cNms)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1007--1007 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r ed" "yellow"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1014--1014 [] \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e nlarged corners:[] Underfull \vbox (badness 10000) has occurred while \output is active [806] [807] [808] [809] Underfull \hbox (badness 5175) in paragraph at lines 1253--1255 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [810] [811] [812] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1424--1424 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [813] [814] [815] Underfull \hbox (badness 3302) in paragraph at lines 1685--1689 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of Underfull \hbox (badness 10000) in paragraph at lines 1685--1689 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [816] [817] [818] [819] [820] Underfull \hbox (badness 1565) in paragraph at lines 1976--1981 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i s to pro-duce and print a postscript copy. This will not Underfull \hbox (badness 1354) in paragraph at lines 1976--1981 \T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n /10 for how to set this up. Win-dows users may pre-fer to use [821] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2059--2059 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [822] Underfull \hbox (badness 1184) in paragraph at lines 2100--2110 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr /m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 2057) in paragraph at lines 2100--2110 []\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 , [823] Underfull \hbox (badness 10000) in paragraph at lines 2212--2214 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [824] [825] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2349--2349 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [826] Underfull \hbox (badness 6758) in paragraph at lines 2400--2403 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are Underfull \hbox (badness 4927) in paragraph at lines 2404--2407 []\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/ m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see [827] [828] Underfull \hbox (badness 2326) in paragraph at lines 2523--2533 []\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place Underfull \hbox (badness 2318) in paragraph at lines 2523--2533 \T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co m-pat-i-bil-ity with pre-2.12.0 Underfull \hbox (badness 2460) in paragraph at lines 2523--2533 \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e vent han-dlers is to set them us-ing Underfull \hbox (badness 1221) in paragraph at lines 2523--2533 []\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics [829] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2626--2626 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] [830] [831] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2711--2711 []\T1/pcr/m/n/10 glyphFont(file, index, family, weight, style, PSname=NA, vari ations=NULL)[] Underfull \hbox (badness 1320) in paragraph at lines 2759--2762 []\T1/ptm/m/n/10 Axis co-or-di-nate set-tings for vari-able fonts. Ei-ther []\T 1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , or a call to [832] Underfull \hbox (badness 10000) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 glyphFontList()[]\T1/ptm/m/n/10 , one or more []\T1/pcr/m/n/10 glyphFont()[]\T1/ptm/m/n/10 s. For Underfull \hbox (badness 1917) in paragraph at lines 2768--2772 []\T1/pcr/m/n/10 glyphFontVar()[]\T1/ptm/m/n/10 , one or more named nu-meric va l-ues (see De-tails). [833] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE) Overfull \hbox (30.78088pt too wide) in paragraph at lines 2898--2898 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [834] [835] [836] [837] [838] Underfull \hbox (badness 10000) in paragraph at lines 3171--3172 [839] [840] [841] [842] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3500--3500 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [843] [844] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3584--3584 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", scale.in = 255))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3585--3585 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [845] [846] Underfull \hbox (badness 10000) in paragraph at lines 3744--3750 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [847] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3826--3826 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE,[] [848] [849] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3918--3918 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin t old palette[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3938--3938 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu stom matplot()[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3945--3945 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab = "", main=main)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3952--3952 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp ace = "Lab")[] Underfull \vbox (badness 10000) has occurred while \output is active [850] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4003--4003 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) Underfull \hbox (badness 8170) in paragraph at lines 4032--4035 []\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 , [851] Underfull \hbox (badness 2189) in paragraph at lines 4093--4098 []\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work s well for shad-ing points or lines in up to five groups, [852] Underfull \hbox (badness 1721) in paragraph at lines 4137--4140 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2019). ``HCL Color Space --- Wikipe dia, The Free En-cy-clo-pe- [853] [854] Underfull \hbox (badness 1112) in paragraph at lines 4297--4301 []\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r o-pean), []\T1/pcr/m/n/10 "CP1251.enc" [855] [856] Underfull \hbox (badness 1577) in paragraph at lines 4463--4470 \T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded ( or cloned) in all com-mon [857] Underfull \hbox (badness 1688) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a gree over that range. Some en-cod-ings are su-per-sets of Underfull \hbox (badness 2012) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do not come out as you ex- [858] [859] [860] Underfull \hbox (badness 5939) in paragraph at lines 4750--4757 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1448) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 version[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 paper[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 fg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 pagecentre[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 colormodel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 useDingbats[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 useKerning[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fi llOddEven[]\T1/ptm/m/n/10 , [861] [862] [863] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4933 \aliasA{symbol}{plotmath}{symbol} [864] [865] [866] [867] [868] [869] [870] [871] Underfull \hbox (badness 1348) in paragraph at lines 5498--5501 []\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also Overfull \hbox (31.3804pt too wide) in paragraph at lines 5524--5524 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10 24, height = 768)[] [872] Underfull \hbox (badness 4582) in paragraph at lines 5565--5571 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 , give a C in-te-ger for-mat such as [873] [874] [875] Underfull \hbox (badness 7344) in paragraph at lines 5804--5806 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso Underfull \hbox (badness 7397) in paragraph at lines 5816--5820 [][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][] []\T1/ptm/m/n/10 which is called from both [876] [877] Underfull \hbox (badness 1552) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 2221) in paragraph at lines 5954--5956 []\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and Underfull \hbox (badness 4686) in paragraph at lines 5985--5991 []\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for [878] Underfull \hbox (badness 5388) in paragraph at lines 6010--6015 []\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [879] [880] [881] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6222--6222 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [882] [883] Underfull \hbox (badness 10000) in paragraph at lines 6309--6311 []\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][] \T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T 1/ptm/m/n/10 for on-screen de-vices and to [884] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6434--6434 [] \T1/pcr/m/n/9 quartzFonts("mono") # the list(mono = ..) sublist o f quartzFonts()[] [885] [886] [887] Overfull \hbox (1.78088pt too wide) in paragraph at lines 6595--6598 \T1/pcr/m/n/10 2015-[]07-[]recording-[]and-[]replaying-[]the-[]graphics-[]engin e-[]display-[]list/$[][]\T1/ptm/m/n/10 . [888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6685--6685 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15, sep = "."))[] Underfull \hbox (badness 10000) in paragraph at lines 6699--6702 []\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [889] [890] Underfull \vbox (badness 10000) has occurred while \output is active [891] [892] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6919--6919 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 3, ltheta = -75,[] [893] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6930--6930 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left or very right):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 6932--6932 [] \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat = p, continuous = CNT),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6934--6934 []\T1/pcr/m/n/9 doHor(-10, 0, z = -0.5, col = 2) # x in [-10, 0] -- to the v ery left : fine[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6935--6935 []\T1/pcr/m/n/9 doHor(-.5, 2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th e right} --> all fine[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 6936--6936 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 ):[] [894] [895] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7068--7068 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 7075--7075 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [896] [897] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 7342--7347 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1803) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/ ptm/m/n/10 , Underfull \hbox (badness 2941) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fillOddEven []\T1/ptm/m/n/10 and [900] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [901] Underfull \hbox (badness 3590) in paragraph at lines 7489--7492 []\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / / Underfull \hbox (badness 2393) in paragraph at lines 7489--7492 \T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www . Overfull \hbox (12.78088pt too wide) in paragraph at lines 7500--7500 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [902] Underfull \hbox (badness 1189) in paragraph at lines 7565--7567 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [903] Underfull \hbox (badness 10000) in paragraph at lines 7670--7672 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [904] Underfull \hbox (badness 10000) in paragraph at lines 7714--7721 []\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of [] \T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and Underfull \hbox (badness 2469) in paragraph at lines 7714--7721 []\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu x sys-tems which have the Wine [905] Underfull \hbox (badness 5607) in paragraph at lines 7796--7800 []\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and [906] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7848--7848 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [907] [908] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8021--8021 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [909] Underfull \hbox (badness 1231) in paragraph at lines 8060--8062 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of Overfull \hbox (9.78043pt too wide) in paragraph at lines 8087--8087 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats ::rnorm(100))[] [910] [911] [912]) (./graphics-pkg.tex Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 17--19 []\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag es, use []\T1/pcr/m/n/10 library(help = [913] [914] [915] [916] [917] [918] [919] Overfull \hbox (6.05087pt too wide) in paragraph at lines 457--457 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 489--495 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [920] [921] Overfull \hbox (47.58038pt too wide) in paragraph at lines 588--588 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [922] Overfull \hbox (15.18042pt too wide) in paragraph at lines 705--705 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [923] Overfull \hbox (15.18042pt too wide) in paragraph at lines 720--720 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax is = "orange")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 725--725 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3 0")) + 0.25,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 726--726 [] \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m gp = c(3,2,0))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 732--732 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa rd Time (HST)")[] Underfull \hbox (badness 10000) in paragraph at lines 759--763 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr /m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or Underfull \hbox (badness 3250) in paragraph at lines 759--763 [][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T 1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\ T1/ptm/m/n/10 if [924] [925] Overfull \hbox (4.38043pt too wide) in paragraph at lines 846--846 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 884--884 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL,[] [926] [927] Underfull \hbox (badness 2181) in paragraph at lines 984--990 [][][]\T1/pcr/m/n/10 order[][][](height[..], decreasing = )[]\T1/ptm/m/n/10 , where []\T1/pcr/m/n/10 []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TRUE []\T1/pt m/m/n/10 or [928] Underfull \hbox (badness 10000) in paragraph at lines 1054--1058 [][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1 /ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl e. Overfull \hbox (133.98029pt too wide) in paragraph at lines 1071--1071 [] \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1073--1073 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset = Age=="Adult"))[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1075--1075 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] [929] [930] [931] [932] [933] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1373--1373 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [934] [935] [936] Underfull \hbox (badness 3375) in paragraph at lines 1574--1576 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [937] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1652--1652 []\T1/pcr/m/n/9 boxplot(z, col.axis = "skyblue3", main = "boxplot(*, col.axi s=..,main=..)")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1653--1653 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main = "plot(*, col.axi s=..,main=..)")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1659--1659 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill = "grey40",[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1660--1660 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [938] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1693--1693 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [939] [940] [941] [942] Underfull \hbox (badness 10000) in paragraph at lines 1973--1979 [][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr /m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and [943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1993--1993 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho d = "simple",[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2005--2005 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1 :3 *1.5, lty = 1:3)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2021--2021 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2030--2030 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [944] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [945] [946] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2247--2247 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] [947] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2252--2252 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [948] [949] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2426--2426 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse t = 1/8, Overfull \hbox (54.78088pt too wide) in paragraph at lines 2427--2427 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [950] Underfull \hbox (badness 1430) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [951] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2543--2543 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 2545--2545 [] \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke y.border = NULL,[] Underfull \hbox (badness 1009) in paragraph at lines 2555--2562 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [952] [953] Underfull \hbox (badness 7273) in paragraph at lines 2639--2643 [][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p tm/m/n/10 and [954] [955] [956] [957] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2900--2900 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2921--2921 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin g "all" grid lines:[] [958] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2960--2960 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [959] [960] Underfull \hbox (badness 1226) in paragraph at lines 3091--3095 \T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1 /pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy Overfull \hbox (15.18042pt too wide) in paragraph at lines 3147--3147 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3151--3151 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [961] Underfull \hbox (badness 10000) in paragraph at lines 3213--3216 [][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1 /pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as [962] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3264--3264 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [963] [964] [965] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3429--3429 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL SE, pch = 19, ...)[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 3434--3434 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [966] [967] Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f ied, raster im-ages are used when the Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, the grid is reg-u-lar and ei-ther Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is Overfull \hbox (31.3804pt too wide) in paragraph at lines 3611--3611 []\T1/pcr/m/n/9 # Visualize as matrix. Need to transpose matrix and then flip it horizontally:[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3613--3613 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m) -1)/(ncol(m)-1), ...) {[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3616--3616 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [968] [969] [970] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3777--3777 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 0, horiz = TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3796--3796 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3800--3800 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [971] [972] [973] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3989--3989 [] \T1/pcr/m/n/9 text (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c ex = 0.8, adj = 0)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3990--3990 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3994--3994 [] \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l engths & coords[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4004--4004 [] \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] [974] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4035--4035 [] \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj = c(0, 0.3))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4061--4061 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4063--4063 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4074--4074 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4089--4089 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Underfull \vbox (badness 10000) has occurred while \output is active [975] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4097--4097 []\T1/pcr/m/n/9 legend("topleft", "(x,y)", pch=1, title= "topleft, inset = .05", inset = .05)[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4099--4099 []\T1/pcr/m/n/9 legend("topright", "(x,y)", pch=1, title= "topright, inset = .02",inset = .02)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4107--4107 [] \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste ("text.font =",i))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4117--4117 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [976] Underfull \hbox (badness 10000) in paragraph at lines 4180--4184 [][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\ T1/pcr/m/n/10 type %in% [977] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4293--4293 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [978] [979] [980] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4443--4443 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [981] Underfull \hbox (badness 3930) in paragraph at lines 4530--4532 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [982] [983] [984] [985] [986] Underfull \hbox (badness 1286) in paragraph at lines 4844--4847 []\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n /10 oma []\T1/ptm/m/n/10 when chang-ing Underfull \hbox (badness 3229) in paragraph at lines 4852--4857 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [987] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4949--4949 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] [988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4954--4954 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [989] Underfull \hbox (badness 1264) in paragraph at lines 5215--5228 \T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 axis[][][][]\T1/ptm/m/n/10 , [990] [991] [992] [993] Underfull \hbox (badness 10000) in paragraph at lines 5481--5484 [994 ] Underfull \hbox (badness 10000) in paragraph at lines 5542--5544 [995 ] [996] [997] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5796--5796 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, physicians = 9,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5797--5797 [] \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t eachers = 4,[] Underfull \vbox (badness 10000) has occurred while \output is active [998] [999] [1000] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6015--6015 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6, pmat = res), co l = 2, pch = 16)[] [1001] [1002] [1003] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6164--6164 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p yramid" = 5),[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 6165--6165 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [1004] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6231 \aliasA{plot}{plot.default}{plot} Overfull \hbox (78.78088pt too wide) in paragraph at lines 6243--6243 [] \T1/pcr/m/n/10 log = "", lim2 = FALSE, main = NULL, sub = NULL, xlab = NULL, ylab = NULL,[] Underfull \hbox (badness 7981) in paragraph at lines 6276--6281 []\T1/ptm/m/n/10 logical, rel-e-vant only when at least one of []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ylim []\T1/ptm/m/n/10 are Underfull \hbox (badness 10000) in paragraph at lines 6276--6281 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 and hence cor-re-spond-ing axis lim-its are com-puted from Underfull \hbox (badness 4279) in paragraph at lines 6276--6281 [][][]\T1/pcr/m/n/10 range[][][]([])[]\T1/ptm/m/n/10 . When true, \T1/ptm/m/it/10 both \T1/ptm/m/n/10 x- [1005] [1006] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 plot(y ~ x, log="x") # --> Warning: 2 x values <= 0 omitted f rom log..plot[] [1007] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6415--6415 [] \T1/pcr/m/n/9 # nice - reasonable y- axis [0, 0.8][] [1008] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6597--6597 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [1010] [1011] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6721--6721 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 10000) in paragraph at lines 7033--7035 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [1017] Underfull \hbox (badness 1028) in paragraph at lines 7126--7128 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [1018] Overfull \hbox (31.57222pt too wide) in paragraph at lines 7167--7168 [][] [1019 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7262--7262 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7266--7266 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in PDF/HTML help)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7267--7267 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100, units = "in")[] [1020] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7291--7291 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] [1021] Underfull \hbox (badness 10000) in paragraph at lines 7413--7415 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr [1022] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7444--7444 [] \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b order = "red")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [1023] Underfull \hbox (badness 2600) in paragraph at lines 7507--7509 []\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T 1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or [1024] [1025] [1026] [1027] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7743--7743 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [1028] [1029] [1030] [1031] [1032] [1033] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8136--8136 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp ace = "Lab")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8140--8140 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8152--8152 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] [1034] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8179--8179 [] \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights = NULL, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8188--8188 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1035] [1036] [1037] [1038] [1039] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8504--8504 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8507--8507 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8511--8511 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1040] [1041] [1042] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8699--8699 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...) Overfull \hbox (36.78088pt too wide) in paragraph at lines 8700--8700 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1043] [1044] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8804--8804 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1045] Underfull \hbox (badness 1112) in paragraph at lines 8863--8867 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) is drawn. For [1046] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8927--8927 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035 , seg.lwd = .8)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8942--8942 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1047] [1048] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9083--9083 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1049] [1050] [1051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9281--9281 [] \T1/pcr/m/n/9 "Le franais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: Rgles, Libert, Egalit, Fraternit...")[] Underfull \hbox (badness 1215) in paragraph at lines 9309--9311 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m /n/10 par(c("font.sub", [1052] Underfull \hbox (badness 1584) in paragraph at lines 9343--9349 []\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [ ]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} [1053] Underfull \hbox (badness 1205) in paragraph at lines 9457--9459 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1054] [1055] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9578--9578 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 2, length = 0.1)[] [1056]) (./grid-pkg.tex Chapter 6. [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] Underfull \hbox (badness 4859) in paragraph at lines 638--641 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1067] [1068] [1069] [1070] [1071] [1072] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1032--1032 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1073] [1074] [1075] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \T1/pcr/m/n/9 vpList(vpStack(viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1245--1245 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1246--1246 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1247--1247 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1248--1248 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1076] [1077] [1078] [1079] Underfull \hbox (badness 3219) in paragraph at lines 1507--1510 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [1080] [1081] [1082] [1083] [1084] [1085] [1086] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1895--1895 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1087] [1088] [1089] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2109--2109 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla ck"), name="r1")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey" ), name="r2")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1090] Underfull \hbox (badness 2961) in paragraph at lines 2146--2151 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 , [1091] Underfull \hbox (badness 4479) in paragraph at lines 2234--2237 []\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/ n/10 to al-low a grob to per-form cus-tom ac-tions and [1092] [1093] [1094] Underfull \hbox (badness 2894) in paragraph at lines 2441--2448 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [1095] [1096] [1097] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2597--2597 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1098] Underfull \hbox (badness 1014) in paragraph at lines 2683--2688 []\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. Can be [1099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2729--2729 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1100] [1101] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2891--2891 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1102] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2923--2923 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1103] [1104] Underfull \hbox (badness 10000) in paragraph at lines 3106--3108 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1105] Underfull \hbox (badness 1077) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/ ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine Underfull \hbox (badness 1622) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter- Underfull \hbox (badness 2057) in paragraph at lines 3123--3142 []\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "color.dodge"[]\T1/ptm/m/n/10 , [1106] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3195--3195 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1107] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3310--3310 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1108] [1109] [1110] [1111] [1112] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3625--3625 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1113] [1114] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3721--3721 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just= c("left", "bottom")))[] Underfull \hbox (badness 2799) in paragraph at lines 3758--3764 []\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see [1115] [1116] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3850--3850 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3857--3857 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1117] [1118] [1119] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4059--4059 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1120] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4074--4074 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4095--4095 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] Underfull \hbox (badness 1067) in paragraph at lines 4845--4848 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1133] [1134] [1135] [1136] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5061--5061 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1137] [1138] Underfull \hbox (badness 7256) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1139] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5263--5263 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s tats::runif(20, -45,45),[] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \hbox (badness 2726) in paragraph at lines 5652--5656 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list Underfull \hbox (badness 1231) in paragraph at lines 5652--5656 \T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For []\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther [1146] Underfull \hbox (badness 2080) in paragraph at lines 5734--5739 []\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1147] [1148] [1149] Underfull \hbox (badness 10000) in paragraph at lines 5914--5916 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a r-gu-ments above are passed to [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7015--7015 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1167] [1168] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7135--7135 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1169] Underfull \hbox (badness 1867) in paragraph at lines 7237--7239 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or [1170] Underfull \hbox (badness 10000) in paragraph at lines 7274--7280 [][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 , [1171] [1172] [1173] Underfull \vbox (badness 10000) has occurred while \output is active [1174] [1175] [1176] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7610--7610 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1177]) (./methods-pkg.tex [1178] Chapter 7. [1179] [1180] Underfull \hbox (badness 1688) in paragraph at lines 169--174 []\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how co-erce meth-ods work. Use [1181] [1182] [1183] Underfull \hbox (badness 1348) in paragraph at lines 399--402 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1184] [1185] Overfull \hbox (15.18042pt too wide) in paragraph at lines 566--566 []\T1/pcr/m/n/9 ## vector. The next method will always be the default, usuall y a primitive.[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 576--576 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1186] Overfull \hbox (4.38043pt too wide) in paragraph at lines 627--627 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho ut arguments[] Underfull \vbox (badness 10000) has occurred while \output is active [1187] Overfull \hbox (25.98041pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th e default method[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 648--648 []\T1/pcr/m/n/9 ## call f() with 1 argument: the default "B0" is not passed b y callNextMethod[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 665--665 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the "B0" method[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 680--680 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1808--1808 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1810--1810 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 1995--2000 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class [1205] [1206] [1207] Underfull \hbox (badness 1478) in paragraph at lines 2227--2232 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/pcr/m/n/10 where = [1208] [1209] Underfull \hbox (badness 10000) in paragraph at lines 2345--2349 []\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment [][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call Overfull \hbox (78.78088pt too wide) in paragraph at lines 2379--2379 []\T1/pcr/m/n/10 getMethods(f, where, table = FALSE) # deprecated -> use getMe thodsForDispatch()[] [1210] [1211] [1212] Underfull \hbox (badness 3792) in paragraph at lines 2592--2595 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1213] Underfull \hbox (badness 1194) in paragraph at lines 2623--2627 []\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/ n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and Overfull \hbox (24.78088pt too wide) in paragraph at lines 2679--2679 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1214] [1215] [1216] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2903--2903 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 10000) in paragraph at lines 3431--3436 []\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r e-turns the im-plicit generic ver-sion, Underfull \hbox (badness 6268) in paragraph at lines 3431--3436 []\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents [1224] [1225] [1226] Underfull \hbox (badness 10000) in paragraph at lines 3559--3563 []\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class [1227] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3668--3677 [] [1228] [1229] Underfull \hbox (badness 10000) in paragraph at lines 3788--3789 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3835--3836 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1230] Underfull \hbox (badness 10000) in paragraph at lines 3872--3873 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3935--3939 []\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) [] \T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to [1231] [1232] [1233] [1234] [1235] [1236] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4346--4346 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4347--4347 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1237] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4409--4409 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1238] [1239] Underfull \hbox (badness 2126) in paragraph at lines 4555--4563 []\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 , [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 4792--4801 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1243] Underfull \vbox (badness 2452) has occurred while \output is active [1244] [1245] [1246] [1247] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5181--5181 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5209--5209 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Underfull \vbox (badness 10000) has occurred while \output is active [1248] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5223--5223 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] [1249] [1250] [1251] Underfull \hbox (badness 3803) in paragraph at lines 5497--5499 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1252] [1253] [1254] [1255] Underfull \hbox (badness 1087) in paragraph at lines 5731--5736 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 10000) in paragraph at lines 6207--6223 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p tm/m/n/10 is equiv-a-lent to in-vok-ing the method [1261] [1262] Underfull \hbox (badness 1248) in paragraph at lines 6340--6344 []\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T 1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions, Underfull \hbox (badness 1960) in paragraph at lines 6340--6344 \T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to per-form stan-dard ini-tial-iza-tion, as shown in the [1263] [1264] Underfull \hbox (badness 4647) in paragraph at lines 6495--6497 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1265] Underfull \hbox (badness 2875) in paragraph at lines 6644--6653 []\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen se as any S4 class (see Underfull \hbox (badness 1436) in paragraph at lines 6644--6653 [][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of- ten a good idea; they will be called by call-ing [1266] [1267] Underfull \vbox (badness 10000) has occurred while \output is active [1268] [1269] [1270] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6976 \aliasA{S4}{S3Part}{S4} Overfull \hbox (66.78088pt too wide) in paragraph at lines 7012--7012 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1271] [1272] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data = datasets::iris)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7209--7209 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1273] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7234 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7236 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7237 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.matrixOps }) has been already used, duplicate ignored \relax l.7239 ...sA{matrixOps}{S4groupGeneric}{matrixOps} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7240 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7241 \aliasA{Summary}{S4groupGeneric}{Summary} [1274] Underfull \hbox (badness 3907) in paragraph at lines 7297--7302 []\T1/ptm/m/n/10 There are also S3 groups []\T1/pcr/m/n/10 Math[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Ops[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Summary[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 Complex []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 matrixOps[ ]\T1/ptm/m/n/10 , see Underfull \hbox (badness 2050) in paragraph at lines 7303--7307 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing Underfull \hbox (badness 6708) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c os"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3209) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp i"[]\T1/ptm/m/n/10 , [1275] Overfull \hbox (58.38037pt too wide) in paragraph at lines 7395--7395 []\T1/pcr/m/n/9 selectMethod("Re", signature = "testComplex") # shows Generic: .. "Re" & .."Complex"[] [1276] Underfull \hbox (badness 1694) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see [1277] Underfull \hbox (badness 10000) in paragraph at lines 7508--7511 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS uperClasses() []\T1/ptm/m/n/10 which calls Overfull \hbox (20.58041pt too wide) in paragraph at lines 7529--7529 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8649--8649 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1292] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8725--8725 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1293] [1294] [1295] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8988--8988 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1296] [1297] [1298] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9195--9195 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1299] [1300] [1301] [1302] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9458--9458 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1303] [1304] [1305] [1306] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9769--9769 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1307] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9879--9879 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1308] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9890--9890 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] Underfull \hbox (badness 10000) in paragraph at lines 10615--10617 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi on" []\T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 10623--10627 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., Underfull \hbox (badness 1681) in paragraph at lines 10623--10627 []\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1318] [1319] [1320] [1321]) (./parallel-pkg.tex [1322] Chapter 8. Underfull \hbox (badness 2418) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1323] Underfull \hbox (badness 4242) in paragraph at lines 96--98 []\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for [1324] [1325] Underfull \hbox (badness 1024) in paragraph at lines 213--216 []\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1 /ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m /n/10 , and [1326] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1327] [1328] Underfull \hbox (badness 10000) in paragraph at lines 453--455 []\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/ n/10 Rscript []\T1/ptm/m/n/10 such as [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1917) in paragraph at lines 802--811 []\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1 /pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class Underfull \hbox (badness 1178) in paragraph at lines 802--811 []\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If [1334] [1335] Overfull \hbox (60.78088pt too wide) in paragraph at lines 895--895 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1336] [1337] [1338] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1086--1086 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit y.list = affL)[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1090--1090 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1339] Underfull \hbox (badness 5388) in paragraph at lines 1205--1210 []\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [ ]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from [1340] Underfull \hbox (badness 10000) in paragraph at lines 1229--1237 []\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/ ptm/m/n/10 is dif-fer-ent only if Overfull \hbox (9.78043pt too wide) in paragraph at lines 1265--1265 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] [1341] [1342] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1380--1380 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1394--1394 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] [1343] Underfull \hbox (badness 1577) in paragraph at lines 1423--1426 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the Underfull \hbox (badness 3375) in paragraph at lines 1470--1472 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to [1344] [1345]) (./splines-pkg.tex [1346] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (4.38043pt too wide) in paragraph at lines 508--508 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1355] Underfull \hbox (badness 1043) in paragraph at lines 609--611 []\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the [1356] [1357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 723--723 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1358] [1359] [1360]) (./stats-pkg.tex Chapter 10. [1361] Underfull \hbox (badness 1077) in paragraph at lines 71--74 []\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 , Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $ Species" with 3 levels:[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 94--94 [] \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named list, as no factors[] [1362] [1363] [1364] [1365] [1366] Overfull \hbox (20.58041pt too wide) in paragraph at lines 445--445 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea rson Chi-square[] [1367] Overfull \hbox (6.78088pt too wide) in paragraph at lines 468--468 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = FALSE) [1368] [1369] [1370] [1371] [1372] [1373] Underfull \hbox (badness 1024) in paragraph at lines 903--905 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1651--1651 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1654--1654 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1386] [1387] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1798--1798 [] \T1/pcr/m/n/9 if(is.null(xout)) { rx <- range(x, na.rm=TRUE); xout <- seq( rx[1], rx[2], length.out = 25) }[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1804--1804 [] \T1/pcr/m/n/9 approx(x, y, xout=xout, method=M, rule=R, na. rm=na., ...)$y),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1809--1809 [] \T1/pcr/m/n/9 ftable(aperm(ry, 4:1)) # --> (4 * 2 * 2) x length(xout) = 16 x 9 matrix[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1819--1819 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] [1402] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2859--2859 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1403] [1404] [1405] [1406] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3118--3118 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1407] [1408] [1409] Underfull \hbox (badness 10000) in paragraph at lines 3333--3335 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1410] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3382--3382 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1411] [1412] [1413] [1414] [1415] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3741. [1416] Underfull \hbox (badness 4913) in paragraph at lines 3781--3784 []\T1/pcr/m/n/10 rbinom []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 size < .Machine$ integer.max[]\T1/ptm/m/n/10 ) is based on Ka-chitvichyanukul and Overfull \hbox (9.78043pt too wide) in paragraph at lines 3812--3812 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1417] [1418] [1419] [1420] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4090--4090 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1421] [1422] [1423] [1424] [1425] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4383--4383 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4384--4384 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1426] [1427] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4629--4629 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1429] [1430] [1431] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4819--4819 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1432] Underfull \hbox (badness 3989) in paragraph at lines 4916--4923 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1433] [1434] [1435] [1436] Overfull \hbox (66.78088pt too wide) in paragraph at lines 5151--5151 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR T", "Rao"), ...)[] [1437] [1438] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5329--5329 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1)) , ci = c(-1,-1))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5331--5331 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci = c(-0.9,0.1))[] [1439] [1440] [1441] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5553--5553 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] [1442] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5571--5571 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1443] [1444] [1445] Underfull \hbox (badness 1436) in paragraph at lines 5784--5789 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs" []\T1/ptm/m/n/10 , [1446] [1447] Underfull \vbox (badness 10000) has occurred while \output is active [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5986--5986 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1449] [1450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6155--6155 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1451] [1452] [1453] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6340--6340 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1454] [1455] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6452--6452 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] Underfull \hbox (badness 10000) in paragraph at lines 6471--6476 []\T1/ptm/m/n/10 a nu-meric vec-tor in-dex-ing []\T1/pcr/m/n/10 labels(termobj) []\T1/ptm/m/n/10 (that is, the [1456] [1457] [1458] [1459] Underfull \hbox (badness 5954) in paragraph at lines 6721--6723 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1460] Underfull \hbox (badness 2503) in paragraph at lines 6802--6805 []\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 6806--6808 []\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also Underfull \hbox (badness 1655) in paragraph at lines 6809--6814 \T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [ ]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be- fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2, [1461] Underfull \hbox (badness 7238) in paragraph at lines 6845--6848 [][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend rogram[][][] []\T1/ptm/m/n/10 and Overfull \hbox (4.38043pt too wide) in paragraph at lines 6857--6857 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str = "\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 ") # only the first two sub-levels[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6880--6880 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] [1462] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6895--6895 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6910--6910 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1463] [1464] [1465] [1466] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7197--7197 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1 /(2n-2)", las=1)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7202--7202 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] Underfull \vbox (badness 10000) has occurred while \output is active [1467] [1468] [1469] Underfull \vbox (badness 10000) has occurred while \output is active [1470] [1471] [1472] [1473] Underfull \hbox (badness 10000) in paragraph at lines 7602--7606 []\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi nary" []\T1/ptm/m/n/10 or [1474] Underfull \hbox (badness 6493) in paragraph at lines 7704--7707 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from []\T1/ pcr/m/n/10 dist()[]\T1/ptm/m/n/10 , the [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 10000) in paragraph at lines 8263--8268 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences [] \T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 , ..., [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 1107) in paragraph at lines 8597--8600 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 na.action[][][] []\T1/ptm/m/n/10 to b e used if []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is used as a for-mula, in which c ase [1489] [1490] Underfull \hbox (badness 1097) in paragraph at lines 8746--8750 []\T1/ptm/m/n/10 Jreskog KG (1963). \T1/ptm/m/it/10 Sta-tis-ti-cal Es-ti-ma-ti on in Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Almqvist and Wick-sell. Underfull \hbox (badness 10000) in paragraph at lines 8746--8750 [][]$\T1/pcr/m/n/10 https : / / openlibrary . org / books / OL5972263M / Statis tical _ estimation _ [1491] [1492] Underfull \hbox (badness 1325) in paragraph at lines 8898--8910 \T1/ptm/m/n/10 (cor-re-spond-ing to lo-gis-tic, nor-mal and Cauchy CDFs re-spec -tively) []\T1/pcr/m/n/10 log[]\T1/ptm/m/n/10 , [1493] [1494] [1495] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9101--9101 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] Underfull \vbox (badness 10000) has occurred while \output is active [1496] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9146--9146 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link = "log")) # fails[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9149--9149 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1497] [1498] [1499] Underfull \hbox (badness 1810) in paragraph at lines 9382--9388 []\T1/ptm/m/n/10 Singleton RC (1979). ``Mixed Radix Fast Fourier Trans-forms.'' In IEEE Dig-i-tal Sig- Underfull \hbox (badness 2460) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 nal Pro-cess-ing Com-mit-tee (ed.), \T1/ptm/m/it/10 Pro-grams fo r Dig-i-tal Sig-nal Pro-cess-ing\T1/ptm/m/n/10 , chap-ter 1.4.1. Underfull \hbox (badness 1742) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 IEEE Press, New York. ISBN 0-87942-128-2. [][]$\T1/pcr/m/n/10 ht tps : / / archive . org / details / [1500] [1501] [1502] [1503] [1504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9733--9733 [] \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4 0k", "> 40k"),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9734--9734 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1505] [1506] [1507] Underfull \hbox (badness 7291) in paragraph at lines 9915--9917 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1508] [1509] [1510] [1511] Overfull \hbox (54.78088pt too wide) in paragraph at lines 10226--10226 []\T1/pcr/m/n/10 free1way(y, groups, blocks = NULL, event = NULL, weights = NU LL, nbins = 0,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10235--10235 []\T1/pcr/m/n/10 summary(object, test, alternative = c("two.sided", "less", "g reater"),[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 10238--10238 []\T1/pcr/m/n/10 summary(object, test = "Wald", alternative = c("two.sided", " less", "greater"),[] [1512] Underfull \hbox (badness 1253) in paragraph at lines 10318--10323 []\T1/ptm/m/n/10 a char-ac-ter vec-tor defin-ing the global test pro-ce-dure fo r all pa-ram-e-ters: Underfull \hbox (badness 1337) in paragraph at lines 10323--10326 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1513] [1514] [1515] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10497--10497 []\T1/pcr/m/n/9 x$performance <- c(rep(s[c(1, 1)], nvoters[1]), rep(s[c(2, 1)] , nvoters[2]),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10498--10498 [] \T1/pcr/m/n/9 rep(s[c(1, 2)], nvoters[3]), rep(s[c(2, 2)] , nvoters[4]))[] Underfull \vbox (badness 10000) has occurred while \output is active [1516] [1517] [1518] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10687--10687 [] \T1/pcr/m/n/10 row.vars = NULL, col.vars = NULL, perm = c(rev(row.var s), rev(col.vars)))[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10690--10690 [] \T1/pcr/m/n/10 perm = c(rev(seq_len(nrv)), rev(seq_len(ncv) + nrv)) , ...)[] [1519] Underfull \hbox (badness 6944) in paragraph at lines 10767--10773 [][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in- ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment ); [1520] [1521] [1522] Underfull \hbox (badness 3758) in paragraph at lines 10983--10986 []\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or [1523] [1524] [1525] [1526] Overfull \hbox (6.78088pt too wide) in paragraph at lines 11241--11241 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 11267--11272 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1527] Underfull \hbox (badness 4132) in paragraph at lines 11308--11312 []\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth od Underfull \hbox (badness 1112) in paragraph at lines 11362--11368 []\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second []\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak- [1528] Underfull \hbox (badness 10000) in paragraph at lines 11418--11421 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and [1529] [1530] [1531] Underfull \hbox (badness 2142) in paragraph at lines 11638--11641 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1532] [1533] Underfull \hbox (badness 1708) in paragraph at lines 11719--11723 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: Underfull \hbox (badness 10000) in paragraph at lines 11763--11769 [][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1 0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1 0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1534] Underfull \hbox (badness 1418) in paragraph at lines 11801--11806 []\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (= [1535] [1536] Underfull \hbox (badness 2635) in paragraph at lines 11937--11940 \T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\ T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 ) meth-ods and the [1537] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12065--12065 [] \T1/pcr/m/n/9 plot(hcity$D2, hang=-1) # [2,2] as above, [1,2], just y-axis numbers differ[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 12067--12067 []\T1/pcr/m/n/9 mrg <- sapply(hcity, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 [[\TS1/cmt t/m/n/9 `\T1/pcr/m/n/9 , "merge") # defining cluster tree (apart from height)[] [1538] [1539] Underfull \hbox (badness 1694) in paragraph at lines 12152--12155 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1540] Overfull \hbox (25.98041pt too wide) in paragraph at lines 12265--12265 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1541] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12298--12298 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 12311--12315 []\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\ T1/ptm/m/n/10 (the de-fault) or [1542] [1543] [1544] [1545] [1546] [1547] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12643--12643 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12661 \aliasA{hat}{influence.measures}{hat} [1548] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12733--12733 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12745--12745 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] [1549] Underfull \hbox (badness 1062) in paragraph at lines 12800--12805 []\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me nts are there to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 12817--12819 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1550] [1551] [1552] [1553] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13069--13069 []\T1/pcr/m/n/9 integrate(dnorm, 0, 20000) ## "fails" on many systems -- "wron gly" giving \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 0\TS1/pcr/m/n/9 '[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13088--13088 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13089--13089 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 10000) in paragraph at lines 13425--13427 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit = [1559] Underfull \hbox (badness 4739) in paragraph at lines 13448--13450 []\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^ @ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by [1560] [1561] [1562] [1563] Underfull \hbox (badness 3417) in paragraph at lines 13763--13765 []\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/ m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [ ]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <- Underfull \hbox (badness 2894) in paragraph at lines 13769--13773 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method Underfull \hbox (badness 1038) in paragraph at lines 13769--13773 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti ve (or true), trac-ing in-for-ma-tion on the [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14450--14450 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] Underfull \hbox (badness 1281) in paragraph at lines 14512--14516 []\T1/ptm/m/n/10 Johnstone IM, Velle-man PF (1985). ``The Re-sis-tant Line and Re-lated Re-gres-sion Meth- [1575] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14553--14553 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1576] Underfull \hbox (badness 4518) in paragraph at lines 14601--14606 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1577] [1578] [1579] Underfull \hbox (badness 10000) in paragraph at lines 14805--14809 []\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][] []\T1/ptm/m/n/10 , [1580] [1581] [1582] Underfull \hbox (badness 1874) in paragraph at lines 15058--15061 []\T1/ptm/m/n/10 These func-tions call [][][]\T1/pcr/m/n/10 weighted.residuals[ ][][]() []\T1/ptm/m/n/10 so it is as-sumed that the meth-ods for [1583] [1584] Underfull \hbox (badness 1163) in paragraph at lines 15175--15183 \T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re siduals[][][][]\T1/ptm/m/n/10 , [1585] [1586] Underfull \hbox (badness 4518) in paragraph at lines 15297--15302 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1587] [1588] [1589] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15488--15488 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15489--15489 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1590] [1591] [1592] [1593] [1594] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15839--15839 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15840--15840 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1595] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15937--15937 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1596] [1597] [1598] [1599] [1600] [1601] [1602] Underfull \hbox (badness 2726) in paragraph at lines 16348--16351 []\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 , [1603] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16442--16442 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1604] [1605] [1606] [1607] [1608] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16704--16704 [] \T1/pcr/m/n/10 T = Thin.row(Proj(M) - Proj(X)), M = diag(nrow = p), X = ~0,[] [1609] [1610] [1611] [1612] [1613] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17083--17083 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1614] [1615] Underfull \hbox (badness 1490) in paragraph at lines 17236--17241 \T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which are re-cy-cled to the num-ber of data frame rows. Un-like [1616] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17272--17272 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z = log(dist))[] Underfull \hbox (badness 1648) in paragraph at lines 17308--17310 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1617] Overfull \hbox (36.7804pt too wide) in paragraph at lines 17393--17393 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17394--17394 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Overfull \hbox (25.98041pt too wide) in paragraph at lines 18192--18192 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1630] [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Overfull \hbox (58.38037pt too wide) in paragraph at lines 18825--18825 [] \T1/pcr/m/n/9 main = "Residuals vs Hatvalues (nonlinear!)"); abline(h = 0, lty=2, col="gray")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18830--18830 []\T1/pcr/m/n/9 axis(3, at=2*p.n, labels="2 p/n", line = -1/2, padj = 1/2, col =4, col.axis=4)[] [1640] Underfull \vbox (badness 10000) has occurred while \output is active [1641] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18921--18921 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18940--18940 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n umerical differentiation,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 18941--18941 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 18945--18945 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co nverging on *some*):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18946--18946 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal ler than above[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 18949--18949 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Underfull \vbox (badness 10000) has occurred while \output is active [1642] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18981--18981 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1643] [1644] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19159--19159 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1645] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19206--19206 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1646] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19253--19253 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1647] [1648] [1649] Overfull \hbox (102.78088pt too wide) in paragraph at lines 19476--19476 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1650] [1651] [1652] [1653] Underfull \hbox (badness 10000) in paragraph at lines 19761--19767 []\T1/ptm/m/n/10 Method []\T1/pcr/m/n/10 "Brent" []\T1/ptm/m/n/10 is for one-di mensional prob-lems only, us-ing [][][]\T1/pcr/m/n/10 optimize[][][](, [1654] Underfull \hbox (badness 1248) in paragraph at lines 19797--19800 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1661) in paragraph at lines 19810--19814 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 1478) in paragraph at lines 19818--19822 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive . De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/ n/10 and [1655] Underfull \hbox (badness 2042) in paragraph at lines 19876--19878 []\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1 /ptm/m/n/10 method; see com-po-nent [1656] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19982--19982 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1657] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20025--20025 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 20043--20043 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 20046--20046 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1658] Overfull \hbox (36.78088pt too wide) in paragraph at lines 20066--20066 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), Overfull \hbox (36.78088pt too wide) in paragraph at lines 20069--20069 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 20104--20115 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m /n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/ 10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 20104--20115 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately []\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML /cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1659] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20168--20168 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1660] [1661] [1662] [1663] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20419--20419 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 20422--20422 [] \T1/pcr/m/n/9 legend("bottomright", p.adjust.M, col = 1:7, lty = 1:6, bty = "n", inset = 0.05)[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20428--20428 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6, col = 1:7,[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20429--20429 [] \T1/pcr/m/n/9 main = "P-value adjustments [log-log]", log = "xy", xl im=lim, ylim=lim, las=1)[] [1664] [1665] Underfull \hbox (badness 1337) in paragraph at lines 20539--20542 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1666] [1667] [1668] [1669] [1670] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20863--20863 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1671] [1672] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20950--20950 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist vs Leverage* " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 20952--20952 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else panel.raw,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20954--20954 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1673] Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di stance", lty = cook.lty, Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 21027--21033 []\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T 1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in Underfull \hbox (badness 10000) in paragraph at lines 21039--21042 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m /n/10 ylim <- [1674] [1675] [1676] [1677] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21309--21309 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] [1678] [1679] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21443--21443 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 21453--21456 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1680] Underfull \hbox (badness 1107) in paragraph at lines 21511--21513 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate [] \T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to [1681] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21566--21566 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] [1682] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21573--21573 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 1, y.intersp = 1)[] [1683] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21667--21667 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1684] [1685] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21799--21799 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1686] Underfull \hbox (badness 7740) in paragraph at lines 21862--21864 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of [1687] Overfull \hbox (6.78088pt too wide) in paragraph at lines 21910--21910 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1688] Underfull \hbox (badness 10000) in paragraph at lines 21972--21974 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 polym(*, coefs=)[]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 22012--22012 [] \T1/pcr/m/n/9 zm <- zapsmall(polym ( 1:4, c(1, 4:6), degree = 3)) # or just poly():[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22017--22017 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22166--22166 [] \T1/pcr/m/n/10 prob = if (is.null(n)) NULL else rep.int( 1/n, n),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 22168--22168 [] \T1/pcr/m/n/10 blocks = if (is.null(prob)) 1 else NCOL(p rob),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22169--22169 [] \T1/pcr/m/n/10 strata_ratio = 1, delta = NULL, mu = 0, s ig.level = 0.05,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22171--22171 [] \T1/pcr/m/n/10 link = c("logit", "probit", "cloglog", "l oglog"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22172--22172 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "gre ater"), nsim = 100,[] [1692] Underfull \hbox (badness 1337) in paragraph at lines 22206--22209 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1693] [1694] [1695] [1696] [1697] [1698] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22617--22617 [] \T1/pcr/m/n/10 xlab = paste("Cumulative probabilities for", deparse1( substitute(x))),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22618--22618 [] \T1/pcr/m/n/10 ylab = paste("Cumulative probabilities for", deparse1( substitute(y))),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22620--22620 [] \T1/pcr/m/n/10 conf.args = list(link = "logit", type = "Wald", col = NA, border = NULL))[] [1699] [1700] Overfull \hbox (25.98041pt too wide) in paragraph at lines 22721--22721 []\T1/pcr/m/n/9 nd$y <- rnorm(nrow(nd), mean = c(0, .5)[nd$groups], sd = c(1, 1.5)[nd$groups])[] [1701] [1702] [1703] [1704] [1705] Overfull \hbox (58.38037pt too wide) in paragraph at lines 23127--23127 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1706] Underfull \hbox (badness 6859) in paragraph at lines 23195--23202 [][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23206--23212 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1707] [1708] [1709] [1710] [1711] Overfull \hbox (54.78088pt too wide) in paragraph at lines 23501--23501 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string spec-i-fy-ing what should hap-pen in the Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1712] Underfull \hbox (badness 5832) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t he Underfull \hbox (badness 8151) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/ m/n/10 ). In that case, the non- Underfull \hbox (badness 1184) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/ n/10 "non-estim" []\T1/ptm/m/n/10 (see [1713] [1714] [1715] [1716] [1717] [1718] [1719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24000--24000 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1720] [1721] [1722] [1723] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24288--24288 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24289--24289 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1724] [1725] [1726] [1727] [1728] [1729] [1730] Underfull \hbox (badness 1337) in paragraph at lines 24696--24702 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1731] [1732] [1733] [1734] [1735] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25005--25005 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1736] [1737] [1738] [1739] Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 []\T1/ptm/m/n/10 Wicklin R (2017). ``Sam-ple Quan-tiles: A Com-par-i-son of 9 D ef-i-ni-tions.'' Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / Underfull \hbox (badness 10000) in paragraph at lines 25354--25355 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1740] [1741] Overfull \hbox (48.78088pt too wide) in paragraph at lines 25464--25464 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1742] Underfull \hbox (badness 1028) in paragraph at lines 25522--25525 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T 1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and [1743] [1744] Underfull \hbox (badness 10000) in paragraph at lines 25638--25641 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1745] Underfull \hbox (badness 7099) in paragraph at lines 25693--25695 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = [1746] Underfull \hbox (badness 7099) in paragraph at lines 25757--25759 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = Overfull \hbox (31.3804pt too wide) in paragraph at lines 25792--25792 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1747] [1748] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25868--25868 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1749] [1750] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25985--25985 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 25986--25986 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 25987--25987 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25988--25988 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1751] [1752] Underfull \hbox (badness 10000) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[] [][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [ ][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and Underfull \hbox (badness 2495) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing con-tin-gency ta-bles and con-vert-ing them back to Overfull \hbox (15.18042pt too wide) in paragraph at lines 26158--26158 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva r at a minimum[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26159--26159 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 26178--26178 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1753] [1754] Overfull \hbox (60.78088pt too wide) in paragraph at lines 26284--26284 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 26327--26333 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1755] Underfull \hbox (badness 10000) in paragraph at lines 26348--26351 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] = [1756] Overfull \hbox (9.78043pt too wide) in paragraph at lines 26428--26428 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26454--26454 []\T1/pcr/m/n/9 ## An example with initial NAs - used to fail badly (notably f or "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26466--26466 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \vbox (badness 10000) has occurred while \output is active [1763] [1764] Underfull \hbox (badness 6268) in paragraph at lines 26932--26937 [][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 , [1765] [1766] [1767] Underfull \hbox (badness 1867) in paragraph at lines 27140--27142 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 \T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was [1768] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27198--27198 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165 = "Residual standard error" printed fr om summary(lm1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27205--27205 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1769] [1770] [1771] Underfull \hbox (badness 2495) in paragraph at lines 27388--27397 []\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/ m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1 /ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en . [1772] [1773] Overfull \hbox (24.78088pt too wide) in paragraph at lines 27555--27555 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 27562--27564 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1774] [1775] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27648--27648 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 27673--27673 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda = NULL, cv = FALSE, Overfull \hbox (66.78088pt too wide) in paragraph at lines 27676--27676 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1776] [1777] [1778] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27901--27901 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 27905--27911 []\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/ 10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in g only [1779] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27958--27958 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars) & smoothi ng splines")[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 27979--27979 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] [1780] [1781] [1782] Overfull \hbox (0.78088pt too wide) in paragraph at lines 28174--28174 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1783] [1784] [1785] [1786] Underfull \hbox (badness 10000) in paragraph at lines 28446--28454 \T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T 1/pcr/m/n/10 (-frequency(x)/2, [1787] [1788] Overfull \hbox (36.78088pt too wide) in paragraph at lines 28570--28570 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1789] [1790] [1791] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28752--28752 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi * x) + rnorm(30)/10, 3)[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 28758--28758 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28767--28767 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c ol = 3, n = 1001)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28768--28768 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] Underfull \vbox (badness 10000) has occurred while \output is active [1792] Underfull \hbox (badness 2922) in paragraph at lines 28837--28842 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1793] Overfull \hbox (9.78043pt too wide) in paragraph at lines 28874--28874 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim = c(-.3, 5),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 28877--28877 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28886--28886 [] \T1/pcr/m/n/9 c(0 , 1 ), 1, length = 0.08, angle = 25); text(0. 5, 1, quote(1))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28887--28887 [] \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3 # (Asym + R0)/2[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 28891--28891 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] [1794] Underfull \hbox (badness 3240) in paragraph at lines 28945--28948 [][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart [][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff Overfull \hbox (36.7804pt too wide) in paragraph at lines 28966--28966 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log( 0.4), c0 = 3/4)) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28969--28969 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1795] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29052--29052 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log (log(2)))) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29056--29056 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] [1796] Overfull \hbox (58.38037pt too wide) in paragraph at lines 29066--29066 [] \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), phi[1]), pos=0, las=1)[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 29071--29071 [] \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 2922) in paragraph at lines 29107--29113 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1797] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29129--29129 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29145--29145 [] \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 1.5 * exp(-x)"),[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 29159--29159 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af ter increasing maxiter !}[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29161--29161 [] \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, trace=TRUE)[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 29167--29167 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1798] [1799] Overfull \hbox (30.78088pt too wide) in paragraph at lines 29278--29278 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1800] Underfull \hbox (badness 2922) in paragraph at lines 29340--29345 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1801] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29378--29378 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] [1802] Underfull \hbox (badness 2922) in paragraph at lines 29427--29432 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29458--29458 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] [1803] Underfull \hbox (badness 2922) in paragraph at lines 29492--29497 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (25.98041pt too wide) in paragraph at lines 29517--29517 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number of iter...: 0" :[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 29521--29521 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR UE), trace = TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29541--29541 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 29551--29551 [] \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0, 2.5,3.5), # NB. SSlogis(x = xmid = 2) = 2.5[] Underfull \hbox (badness 2922) in paragraph at lines 29586--29591 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1805] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29608--29608 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29626--29626 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1806] Underfull \hbox (badness 6493) in paragraph at lines 29678--29683 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29710--29710 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29712--29712 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29716--29716 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul l() fit to Chick.6")[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29719--29719 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] Underfull \hbox (badness 3396) in paragraph at lines 30616--30618 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/ n/10 , usu-ally, a re-sult of a call to [1821] [1822] [1823] Underfull \hbox (badness 2237) in paragraph at lines 30795--30797 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1824] [1825] Underfull \hbox (badness 2591) in paragraph at lines 30967--30969 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/ n/10 , usu-ally the re-sult of a call to [1826] Underfull \hbox (badness 2237) in paragraph at lines 31013--31016 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1827] Overfull \hbox (48.78088pt too wide) in paragraph at lines 31086--31086 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1828] [1829] Underfull \hbox (badness 3407) in paragraph at lines 31195--31199 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see []\T1/pcr/m/n/10 corr []\T1/ptm/m/n/10 be-low) [1830] Overfull \hbox (47.58038pt too wide) in paragraph at lines 31265--31265 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1831] Underfull \hbox (badness 1337) in paragraph at lines 31328--31332 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1832] [1833] [1834] [1835] Overfull \hbox (9.78043pt too wide) in paragraph at lines 31618--31618 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] [1836] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31662--31662 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1837] Underfull \hbox (badness 1616) in paragraph at lines 31688--31691 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1838] Overfull \hbox (20.58041pt too wide) in paragraph at lines 31767--31767 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] Underfull \hbox (badness 10000) in paragraph at lines 31805--31810 []\T1/ptm/m/n/10 There are meth-ods for classes []\T1/pcr/m/n/10 "aovlist"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "terms"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 " formula" []\T1/ptm/m/n/10 (see [1839] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31845--31845 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1840] [1841] [1842] [1843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32096--32096 []\T1/pcr/m/n/10 toeplitz2(x, nrow = length(x) +1 - ncol, ncol = length(x) +1 - nrow)[] Underfull \hbox (badness 2913) in paragraph at lines 32102--32106 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs t col-umn of the Toeplitz ma-trix; for [1844] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32139--32139 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32152--32152 [] \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette rs[seq_len(n-9)]))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 32163--32163 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" -> longer than y)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 32165--32165 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray", lty=2, add=TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32197--32197 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1845] [1846] Underfull \hbox (badness 1655) in paragraph at lines 32275--32278 []\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1 0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 , Overfull \hbox (20.58041pt too wide) in paragraph at lines 32314--32314 []\T1/pcr/m/n/9 utils:: methods(class = "ts") # all functions with methods ava ilable for "ts"[] [1847] [1848] [1849] [1850] [1851] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32651--32651 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE) Overfull \hbox (12.78088pt too wide) in paragraph at lines 32652--32652 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1852] [1853] [1854] [1855] [1856] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32953--32953 [] \T1/pcr/m/n/10 extendInt = c("no", "yes", "downX", "upX"), check.con v = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32954--32954 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1857] [1858] Overfull \hbox (31.3804pt too wide) in paragraph at lines 33084--33084 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33093--33093 []\T1/pcr/m/n/9 ## where as \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 simply first enlarges the search interval:[] Underfull \vbox (badness 10000) has occurred while \output is active [1859] [1860] [1861] Underfull \hbox (badness 1337) in paragraph at lines 33310--33314 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] Underfull \hbox (badness 1337) in paragraph at lines 33858--33862 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1870] [1871] [1872] Overfull \hbox (74.58035pt too wide) in paragraph at lines 34103--34103 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) # same ties as (4:2, 3:1)[] [1873] [1874] [1875] Overfull \hbox (138.78088pt too wide) in paragraph at lines 34276--34276 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1876] Overfull \hbox (0.78088pt too wide) in paragraph at lines 34362--34362 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, Overfull \hbox (0.78088pt too wide) in paragraph at lines 34364--34364 [] \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F ALSE)[] [1877] [1878] [1879] [1880]) (./stats4-pkg.tex Chapter 11. [1881] [1882] Overfull \hbox (15.18042pt too wide) in paragraph at lines 182--182 []\T1/pcr/m/n/9 nLL <- function(lambda) with(ec50,-sum(stats::dpois(y, lambda, log = TRUE)))[] [1883] Overfull \hbox (25.98041pt too wide) in paragraph at lines 197--197 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf ), log = TRUE)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 205--205 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf), log = TRUE)))[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 225--225 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/e xp(lxhalf)), log = TRUE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Overfull \hbox (4.38043pt too wide) in paragraph at lines 257--257 []\T1/pcr/m/n/9 summary(mle(mll_lm, lower=list(sigma = 0.01))) # alternative s pecification[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 281--281 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] Underfull \vbox (badness 10000) has occurred while \output is active [1885] [1886] [1887] [1888] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.506 ...Package \pkg{stats4}}{show.Rdash.methods} [1889] [1890] [1891]) (./tcltk-pkg.tex [1892] Chapter 12. [1893] [1894] [1895] [1896] [1897] Overfull \hbox (36.7804pt too wide) in paragraph at lines 370--370 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1898] [1899] Underfull \vbox (badness 10000) has occurred while \output is active [1900] [1901] Underfull \hbox (badness 1292) in paragraph at lines 687--694 []\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1902] [1903] [1904] [1905] Underfull \vbox (badness 10000) has occurred while \output is active [1906] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1100--1100 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1907] [1908] [1909] [1910] [1911] Underfull \hbox (badness 1189) in paragraph at lines 1428--1431 [][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/ n/10 (whose [1912]) (./tools-pkg.tex Chapter 13. [1913] Overfull \hbox (9.78043pt too wide) in paragraph at lines 69--69 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for new methods.[] [1914] Underfull \hbox (badness 1253) in paragraph at lines 167--170 []\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1915] Overfull \hbox (4.38043pt too wide) in paragraph at lines 218--218 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch ing warning)[] [1916] Underfull \hbox (badness 5147) in paragraph at lines 326--339 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 Underfull \hbox (badness 4792) in paragraph at lines 326--339 \T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n /10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou- Underfull \hbox (badness 2237) in paragraph at lines 326--339 \T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n /10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10 , [1917] [1918] Overfull \hbox (42.78088pt too wide) in paragraph at lines 410--410 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 429--431 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1919] Underfull \hbox (badness 1142) in paragraph at lines 501--505 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1920] [1921] [1922] [1923] [1924] [1925] [1926] Underfull \hbox (badness 1024) in paragraph at lines 920--927 \T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n /10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o r [1927] Overfull \hbox (0.78088pt too wide) in paragraph at lines 992--992 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1928] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1047--1047 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1929] [1930] [1931] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1298--1298 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1299--1299 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1932] Underfull \hbox (badness 1014) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1352--1354 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1933] Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us- Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 \T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 1397--1400 []\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in- her-it-ing from class [1934] [1935] Underfull \hbox (badness 10000) in paragraph at lines 1544--1547 []\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [ ]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1 /ptm/m/n/10 and [1936] [1937] Underfull \hbox (badness 4647) in paragraph at lines 1726--1731 []\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with char-ac-ter columns con-tain-ing most Underfull \hbox (badness 7869) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu r-rent pack-ages in the CRAN pack-age repos-i- Underfull \hbox (badness 1681) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta iner in-for-ma-tion not pro-vided by [1938] Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 CRAN_current_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_aliases_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_rdx refs_db()[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/pcr/m/n/10 CRAN_authors_db() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 CRAN_a rchive_db() []\T1/ptm/m/n/10 (also used by []\T1/pcr/m/n/10 R CMD check[]\T1/pt m/m/n/10 ) Underfull \hbox (badness 4120) in paragraph at lines 1803--1813 \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R_CRAN_SRC []\T1/ptm/m/n/10 rather than []\ T1/pcr/m/n/10 R_CRAN_WEB[]\T1/ptm/m/n/10 . The mir-ror to be used is re-ported by [1939] [1940] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1927--1927 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1934--1942 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 1934--1942 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1934--1942 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, [1941] [1942] [1943] [1944] [1945] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.2189 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.2190 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1946] [1947] [1948] [1949] [1950] Underfull \hbox (badness 1142) in paragraph at lines 2531--2537 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the pack-age [1951] Underfull \hbox (badness 2359) in paragraph at lines 2596--2603 []\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user and site spe-cific com-pi-la- Underfull \hbox (badness 1102) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1 0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com- Underfull \hbox (badness 4168) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/ m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m /n/10 with [1952] Underfull \hbox (badness 1342) in paragraph at lines 2647--2653 \T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in Underfull \hbox (badness 10000) in paragraph at lines 2672--2679 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. The [1953] Underfull \hbox (badness 1259) in paragraph at lines 2736--2739 []\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/ ptm/m/n/10 searches for strings match-ing the pat-tern of Underfull \hbox (badness 1648) in paragraph at lines 2740--2746 []\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran s-formed more than once. The first Underfull \hbox (badness 1708) in paragraph at lines 2740--2746 \T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 . [1954] [1955] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2884--2884 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2899--2907 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 2899--2907 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2899--2907 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, Overfull \hbox (15.18042pt too wide) in paragraph at lines 2935--2935 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster" , "codetools")[] [1956] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2968--2968 [] \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations = TRUE)[] [1957] [1958] [1959] [1960] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3272--3272 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system .Rd"),[] [1961] Underfull \hbox (badness 2486) in paragraph at lines 3317--3325 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d efined macros may be given in a sep-a-rate file us-ing [1962] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3373--3373 [] \T1/pcr/m/n/10 stylesheet = file.path(R.home("doc"), "html", "R-nav .css"),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3374--3374 [] \T1/pcr/m/n/10 hooks = list(pkg_href = function(pkg) sprintf("%s.ht ml", pkg)),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 mathjax_config = file.path(R.home("doc"), "html", "m athjax-config.js"),[] [1963] [1964] [1965] [1966] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3644--3644 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = NULL) Overfull \hbox (0.78088pt too wide) in paragraph at lines 3648--3648 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = NULL)[] [1967] [1968] [1969] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 fragment = FALSE, ..., writeEncoding = outputEncodin g != "UTF-8",[] [1970] Underfull \hbox (badness 1072) in paragraph at lines 3933--3935 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec- tor of links, as re-turned by [1971] [1972] Underfull \hbox (badness 7667) in paragraph at lines 4104--4105 []\T1/ptm/m/n/10 The sym-bol to use as a bul-let in [1973] [1974] [1975] Overfull \hbox (72.78088pt too wide) in paragraph at lines 4276--4276 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 4314--4325 []\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 , [1976] [1977] [1978] [1979] [1980] Underfull \hbox (badness 4108) in paragraph at lines 4586--4595 []\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o n the loop-back in-ter-face [1981] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4689--4689 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] [1982] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4692--4692 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net", "all"),[] Underfull \hbox (badness 10000) in paragraph at lines 4717--4719 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1983] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4776--4776 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = "Priority"))[] [1984] Underfull \hbox (badness 4954) in paragraph at lines 4841--4846 []\T1/ptm/m/n/10 On Unix-alikes, the de-fault op-tion for []\T1/pcr/m/n/10 texi 2dvi []\T1/ptm/m/n/10 is set from en-vi-ron-ment vari-able [1985] [1986] [1987] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5043--5043 []\T1/pcr/m/n/9 toTitleCase("ensemble tool for predictions from species distri bution models")[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 5047--5047 []\T1/pcr/m/n/9 toTitleCase("a small fox is jumping") # "a Small Fox is .." (the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 a\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 may cha nge)% i.e. BUG[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5051--5051 []\T1/pcr/m/n/9 toTitleCase("asking -- \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 is a smal l fox jumping?\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ") # ".. -- Is a Small ..." (fi ne)[] [1988] [1989] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5134--5134 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1990] [1991] Underfull \hbox (badness 10000) in paragraph at lines 5318--5321 []\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig ht[]\T1/ptm/m/n/10 ' and [1992] Underfull \hbox (badness 6859) in paragraph at lines 5334--5339 []\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/ ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\ T1/ptm/m/n/10 ' are up-dated from Underfull \hbox (badness 1184) in paragraph at lines 5342--5348 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po /\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T he Underfull \hbox (badness 2941) in paragraph at lines 5342--5348 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t he pack-age are ex-am-ined to cre-ate a file [1993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5451--5451 []\T1/pcr/m/n/9 parse_URI_reference(c("foo://example.com:8042/over/there?name= ferret#nose",[] [1994] [1995] [1996] Underfull \hbox (badness 10000) in paragraph at lines 5647--5649 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 , such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or [1997] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5675--5675 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5676--5676 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = grepl("binary", type),[] Underfull \hbox (badness 3240) in paragraph at lines 5689--5692 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ', Underfull \hbox (badness 1742) in paragraph at lines 5693--5703 []\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 , [1998] Underfull \hbox (badness 1127) in paragraph at lines 5740--5746 []\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo r R pack-ages, ex-tracts in-for-ma-tion from Underfull \hbox (badness 1635) in paragraph at lines 5740--5746 \T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file , and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1 0 ', Underfull \hbox (badness 1571) in paragraph at lines 5768--5772 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by Underfull \hbox (badness 2772) in paragraph at lines 5794--5799 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][ ]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat -ing ex-ist-ing [1999] [2000] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5929--5929 [] \T1/pcr/m/n/9 " stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n /9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] [2001] [2002]) (./utils-pkg.tex Chapter 14. Underfull \hbox (badness 1072) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [2003] [2004] [2005] [2006] Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min imize", Underfull \hbox (badness 10000) in paragraph at lines 384--386 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow han-dles, by de-fault pro-duced by [2009] Overfull \hbox (9.78043pt too wide) in paragraph at lines 450--450 []\T1/pcr/m/n/9 # This default is useful only in SDI mode: it will tile any F irefox window[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [2010] [2011] [2012] Overfull \hbox (6.78088pt too wide) in paragraph at lines 690--690 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 691--691 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [2013] Underfull \hbox (badness 10000) in paragraph at lines 727--733 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 4416) in paragraph at lines 727--733 []\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a spell_package_C_files []\T1/ptm/m/n/10 per-form spell check- [2014] Overfull \hbox (6.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 fields = getOption("available_packages_fie lds"),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 801--801 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 841--844 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' [2015] Underfull \hbox (badness 1552) in paragraph at lines 935--941 []\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the pack-age names and col- [2016] Overfull \hbox (31.3804pt too wide) in paragraph at lines 961--961 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter s = "duplicates")[] [2017] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [2018] [2019] Underfull \hbox (badness 7649) in paragraph at lines 1137--1143 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co de should be given ad-di-tion-ally; Underfull \hbox (badness 5533) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[ ]\T1/ptm/m/n/10 . The de-fault for Underfull \hbox (badness 4739) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on the num-ber of (bib) en-tries and Underfull \hbox (badness 1215) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1146--1148 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2020] Underfull \hbox (badness 10000) in paragraph at lines 1264--1267 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [2021] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1346--1346 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2022] [2023] [2024] [2025] [2026] [2027] [2028] Underfull \hbox (badness 3919) in paragraph at lines 1755--1758 []\T1/ptm/m/n/10 the re-cip-i-ent's email ad-dress, which is by de-fault in-fer red from the [2029] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1855--1855 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] [2030] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1887--1887 [] \T1/pcr/m/n/10 md5sum = FALSE, digest = NULL, full.names = length(path) > 1,[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1890--1890 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [2031] [2032] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2036--2036 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [2033] Underfull \hbox (badness 2277) in paragraph at lines 2105--2110 []\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes Overfull \hbox (36.7804pt too wide) in paragraph at lines 2137--2137 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", "upper", "xdigit")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2139--2139 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul tiple = TRUE))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2147--2147 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [2034] [2035] [2036] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2295--2295 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [2037] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2347--2347 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [2038] [2039] Underfull \hbox (badness 1117) in paragraph at lines 2473--2480 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/ ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2473--2480 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2040] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [2041] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2667--2667 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2042] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2722--2722 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) [2043] Underfull \hbox (badness 1082) in paragraph at lines 2751--2755 [][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file s; pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2756 ... the Clipboard in MS Windows}{clipboard} [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 2880--2882 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2046] [2047] [2048] Underfull \hbox (badness 10000) in paragraph at lines 3100--3102 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [2049] [2050] [2051] [2052] Underfull \hbox (badness 1762) in paragraph at lines 3392--3395 []\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package = [2053] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3480--3480 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se ts in the rpart package[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3481--3481 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m /n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [2054] Underfull \hbox (badness 2452) in paragraph at lines 3555--3558 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\ T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources [2055] [2056] [2057] [2058] [2059] [2060] [2061] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3993--3993 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [2062] Underfull \hbox (badness 4779) in paragraph at lines 4074--4079 []\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2063] Underfull \hbox (badness 1072) in paragraph at lines 4156--4160 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2064] Underfull \hbox (badness 7238) in paragraph at lines 4217--4222 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1 0 via \T1/ptm/m/n/10 the en-vi-ron- Underfull \hbox (badness 1337) in paragraph at lines 4217--4222 \T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / / curl . se / libcurl / c / Underfull \hbox (badness 1184) in paragraph at lines 4232--4248 \T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron- [2065] [2066] Underfull \hbox (badness 4660) in paragraph at lines 4358--4361 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 10000) in paragraph at lines 4382--4384 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do wnload.file[][][] []\T1/ptm/m/n/10 and [2067] [2068] [2069] Underfull \hbox (badness 1565) in paragraph at lines 4568--4572 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [2070] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4651--4651 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2071] Underfull \hbox (badness 1910) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p le is run and Underfull \hbox (badness 1655) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [ ]\T1/ptm/m/n/10 sets the same state as Underfull \hbox (badness 2846) in paragraph at lines 4686--4693 []\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac k-age's ex-am-ples. This is cur- Underfull \hbox (badness 3460) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau lt", "default", Underfull \hbox (badness 1931) in paragraph at lines 4693--4700 []\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di -cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE) [2072] [2073] [2074] Underfull \hbox (badness 5939) in paragraph at lines 4946--4948 []\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n /10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault [2075] [2076] [2077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5089--5089 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2078] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 1622) in paragraph at lines 5684--5688 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1448) in paragraph at lines 6069--6074 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2092] [2093] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6218--6218 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\ TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/ m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] [2094] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6230--6230 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2095] [2096] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6372--6372 [] \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i s of length 2:[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2097] [2098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2099] [2100] Underfull \hbox (badness 10000) in paragraph at lines 6669--6671 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[] project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also Underfull \hbox (badness 1502) in paragraph at lines 6718--6724 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6718--6724 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2101] [2102] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6839--6839 []\T1/pcr/m/n/9 help.search("linear models") # In case you forgot how to fit linear models[] [2103] Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in- Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 \T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm l\T1/ptm/m/n/10 ', which can be re-made by [2104] Underfull \hbox (badness 2150) in paragraph at lines 6967--6970 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See Underfull \hbox (badness 5175) in paragraph at lines 6983--6986 []\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc h database for sub-se-quent use by [2105] [2106] Underfull \hbox (badness 3118) in paragraph at lines 7105--7107 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2107] [2108] Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends ", "Imports", "LinkingTo", Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports", Underfull \hbox (badness 1270) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2109] Underfull \hbox (badness 1270) in paragraph at lines 7324--7334 \T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If Underfull \hbox (badness 1975) in paragraph at lines 7366--7370 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to []\T1/pcr/m/n/10 R Underfull \hbox (badness 4913) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall. E.g ., []\T1/pcr/m/n/10 c("--html", Underfull \hbox (badness 10000) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 "--no-multiarch", "--no-test-load") []\T1/ptm/m/n/10 or, for ma- cOS, Underfull \hbox (badness 1424) in paragraph at lines 7375--7378 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to Underfull \hbox (badness 10000) in paragraph at lines 7388--7393 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl oad.file[][][][]\T1/ptm/m/n/10 , [2110] Underfull \hbox (badness 2376) in paragraph at lines 7457--7464 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n /10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1087) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt m/m/n/10 al-ways works pro-vided the pack-age con-tains no [2111] Underfull \hbox (badness 1314) in paragraph at lines 7536--7543 []\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from [2112] Underfull \hbox (badness 10000) in paragraph at lines 7620--7625 [][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac kages[][][][]\T1/ptm/m/n/10 , Overfull \hbox (25.98041pt too wide) in paragraph at lines 7642--7642 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2113] Overfull \hbox (48.78088pt too wide) in paragraph at lines 7660--7660 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 7681--7684 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' Underfull \hbox (badness 5133) in paragraph at lines 7685--7689 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1983) in paragraph at lines 7699--7702 []\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [2114] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7746--7746 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7751--7751 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2115] [2116] Underfull \hbox (badness 4132) in paragraph at lines 7877--7879 []\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at [2117] [2118] [2119] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8044--8044 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2120] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8124--8124 []\T1/pcr/m/n/10 make.packages.html(lib.loc = getOption("html_lib.loc", defaul t = .libPaths()), Overfull \hbox (36.78088pt too wide) in paragraph at lines 8125--8125 [] \T1/pcr/m/n/10 temp = FALSE, verbose = TRUE, docdir = R.h ome("doc"))[] [2121] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8190--8190 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2122] Underfull \hbox (badness 10000) in paragraph at lines 8230--8232 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2123] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8323--8323 [] \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa th = FALSE)[] Overfull \hbox (132.78088pt too wide) in paragraph at lines 8325--8325 [] \T1/pcr/m/n/10 all.names = FALSE, dropPa th = FALSE, useEnv = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 8338--8340 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if Underfull \hbox (badness 10000) in paragraph at lines 8356--8358 []\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm /m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2124] [2125] [2126] [2127] Underfull \hbox (badness 1859) in paragraph at lines 8589--8592 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by [2128] [2129] Overfull \hbox (25.98041pt too wide) in paragraph at lines 8719--8719 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^Bug", Category) & gre pl("PR#", Text),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8725--8725 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8733--8733 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2130] Underfull \hbox (badness 1917) in paragraph at lines 8820--8822 []\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/ n/10 , Underfull \hbox (badness 1331) in paragraph at lines 8828--8832 []\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/ m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard = [2131] [2132] [2133] Underfull \hbox (badness 3690) in paragraph at lines 8992--8995 []\T1/ptm/m/n/10 optionally a char-ac-ter string spec-i-fy-ing an [][]En-cod-in g[][][] for the pack-age [2134] Overfull \hbox (66.78088pt too wide) in paragraph at lines 9093--9093 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9094--9094 [] \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/ %d/%y"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9095--9095 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2135] Underfull \hbox (badness 10000) in paragraph at lines 9123--9125 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\ T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut , al-low-ing things like []\T1/pcr/m/n/10 if Underfull \hbox (badness 1259) in paragraph at lines 9145--9150 []\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2136] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9189--9189 [] \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an d "stats" are[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9190--9190 [] \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] [2137] [2138] Underfull \hbox (badness 10000) in paragraph at lines 9316--9321 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade", Underfull \hbox (badness 10000) in paragraph at lines 9323--9326 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("installed", "not [2139] [2140] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9440--9440 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9441--9441 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2141] [2142] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9628--9628 [] \T1/pcr/m/n/9 "S original, "),[] [2143] [2144] [2145] Underfull \hbox (badness 7203) in paragraph at lines 9800--9802 []\T1/ptm/m/n/10 See [][]\T1/ptm/m/sl/10 Writ-ing R Ex-ten-sions[][] \T1/ptm/m/ n/10 and [][]\T1/ptm/m/sl/10 R for Win-dows FAQ[][] \T1/ptm/m/n/10 for more dis -cus-sion of the [2146] [2147] [2148] [2149] Underfull \hbox (badness 2600) in paragraph at lines 10024--10027 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10648--10648 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2158] [2159] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10809--10809 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2160] [2161] [2162] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10989--10989 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 456 98 76 54[] [2163] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11075--11075 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] [2164] Overfull \hbox (72.78088pt too wide) in paragraph at lines 11076--11076 [] \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t ryLogical = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11078--11078 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 11083--11083 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2165] Underfull \hbox (badness 2027) in paragraph at lines 11155--11158 []\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL Underfull \hbox (badness 2435) in paragraph at lines 11178--11182 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1824) in paragraph at lines 11178--11182 []\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/ n/10 ; passed to [2166] [2167] [2168] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11443--11443 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", "HPD"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 11444--11444 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] [2169] Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 \T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG [2170] [2171] [2172] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11685--11685 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2173] [2174] [2175] [2176] Underfull \hbox (badness 2088) in paragraph at lines 11951--11954 \T1/ptm/m/n/10 Ac-cessed 2024-02-22, [][]$\T1/pcr/m/n/10 https : / / en . wikip edia . org / w / index . php ? title = Roman _ [2177] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11968--11968 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:7))) # + NA with a warni ng for the last.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11973--11973 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,4999} :[] [2178] [2179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12127--12127 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12128--12128 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2180] [2181] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12262--12262 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2182] [2183] Underfull \hbox (badness 1917) in paragraph at lines 12394--12397 []\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me nt vari- Underfull \hbox (badness 4328) in paragraph at lines 12394--12397 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 . If this is set, then it takes prece-dence over Overfull \hbox (106.98032pt too wide) in paragraph at lines 12417--12417 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] [2184] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12510--12510 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12511--12511 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12513--12513 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] [2185] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12514--12514 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date: late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 2662) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re -verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or [2186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12582--12582 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] Underfull \hbox (badness 1377) in paragraph at lines 12638--12641 []\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/ m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style [2187] Underfull \hbox (badness 3646) in paragraph at lines 12673--12675 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software / Overfull \hbox (0.78088pt too wide) in paragraph at lines 12714--12714 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE,[] [2188] [2189] [2190] [2191] [2192] Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 RweaveLatexFinish []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 Rweave LatexOptions []\T1/ptm/m/n/10 are func-tions for the []\T1/pcr/m/n/10 setup[]\T 1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 writedoc[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 finish []\T1/ptm/m /n/10 and []\T1/pcr/m/n/10 checkopts []\T1/ptm/m/n/10 el-e-ments of the driver, re-spec-tively. [2193] Underfull \hbox (badness 10000) in paragraph at lines 13063--13067 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i s now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 13096--13102 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a Underfull \hbox (badness 2027) in paragraph at lines 13111--13117 []\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][] []\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m /n/10 out-put in [2194] Underfull \hbox (badness 10000) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 logical ([]\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 ). An al-ter-n a-tive way to set both []\T1/pcr/m/n/10 ignore.on.weave []\T1/ptm/m/n/10 and [2195] Overfull \hbox (6.78088pt too wide) in paragraph at lines 13280--13280 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 13298--13310 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2196] Underfull \hbox (badness 2600) in paragraph at lines 13368--13370 []\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows and [2197] Underfull \hbox (badness 1043) in paragraph at lines 13411--13416 []\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 ' con-fig-ured the map-ping of font num-bers to fonts, and [2198] [2199] [2200] [2201] [2202] Underfull \hbox (badness 10000) in paragraph at lines 13730--13733 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g Underfull \hbox (badness 10000) in paragraph at lines 13733--13736 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2203] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13779--13779 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] Underfull \hbox (badness 2158) in paragraph at lines 13841--13844 []\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated spe-cially: the value is taken from the cur-rent set-ting of [2204] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13894--13894 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2205] [2206] Underfull \hbox (badness 2302) in paragraph at lines 14050--14052 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2207] [2208] Underfull \hbox (badness 3333) in paragraph at lines 14158--14160 []\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file- [2209] [2210] [2211] Overfull \hbox (42.78088pt too wide) in paragraph at lines 14325--14325 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 14358--14361 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 14358--14361 [][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha s only a weak ef-fect, un-less Underfull \hbox (badness 1052) in paragraph at lines 14369--14378 []\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it y rea-sons; [2212] Underfull \hbox (badness 1442) in paragraph at lines 14385--14389 []\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to Overfull \hbox (36.7804pt too wide) in paragraph at lines 14431--14431 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2213] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14458--14458 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo ng" non-ASCII:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14465--14465 []\T1/pcr/m/n/9 ## nchar.max: 1st line needs an increase of 2 in order to se e 1 (in UTF-8!):[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 14467--14467 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2214] [2215] [2216] Underfull \hbox (badness 10000) in paragraph at lines 14632--14634 []\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/ m/n/10 ap-ply only to files pro-duced by [2217] Underfull \hbox (badness 10000) in paragraph at lines 14740--14743 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's []\T1/pcr/m/n/10 se tup []\T1/ptm/m/n/10 func-tion. See Underfull \hbox (badness 1389) in paragraph at lines 14740--14743 [][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/ m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu- [2218] Underfull \hbox (badness 6300) in paragraph at lines 14793--14800 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau lt) then the avail-able syn-tax ob-jects are con-sulted in Underfull \hbox (badness 6252) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt m/m/n/10 com-po-nent matches (as a reg-exp) the file Underfull \hbox (badness 4556) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/ 10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and [2219] [2220] [2221] [2222] Underfull \hbox (badness 2020) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/ n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on some plat-forms), Underfull \hbox (badness 1194) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 -- exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n /10 ' (and sim-i-lar) and on Win-dows Underfull \hbox (badness 1622) in paragraph at lines 15044--15051 []\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able [2223] [2224] Underfull \hbox (badness 5022) in paragraph at lines 15205--15209 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs . Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15859--15859 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2234] Underfull \hbox (badness 4660) in paragraph at lines 15896--15900 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 1694) in paragraph at lines 15910--15914 []\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins talled.packages[][][](lib.loc = Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 \T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][] Underfull \hbox (badness 1052) in paragraph at lines 15922--15924 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 15957--15962 []\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n /10 available.packages(contriburl = Underfull \hbox (badness 1226) in paragraph at lines 15957--15962 \T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type [2235] Underfull \hbox (badness 10000) in paragraph at lines 15978--15983 []\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/ m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 ) with Underfull \hbox (badness 10000) in paragraph at lines 15986--15989 [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa ckages[][][][]\T1/ptm/m/n/10 , [2236] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16062--16062 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2237] [2238] [2239] Underfull \hbox (badness 4832) in paragraph at lines 16263--16266 [][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename \T1/pcr/m/n/10 ", [2240] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16288--16288 []\T1/pcr/m/n/9 ## OK, but warns as this topic is ambiguous: both {grid} and { lattice} have it.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16290--16290 []\T1/pcr/m/n/9 ## (also accelerates vignette retrieval, esp. with many ins talled packages):[] [2241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16347--16347 [] \T1/pcr/m/n/9 lm(weight ~ (Time + I(Time^2)) * Diet, d ata = DAT)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16369--16369 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2242] [2243] Underfull \hbox (badness 1297) in paragraph at lines 16501--16503 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2244] Underfull \hbox (badness 4036) in paragraph at lines 16548--16550 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil l delete a menu and all of its items and sub-menus. [2245] [2246] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16668--16668 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2247] Underfull \hbox (badness 1715) in paragraph at lines 16720--16723 []\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : [] \T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 16765--16767 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. []\T1/pcr/m/n/10 file = [2248] [2249] [2250]) [2251] [2252] (./KernSmooth-pkg.tex Chapter 15. [2253] Overfull \hbox (24.78088pt too wide) in paragraph at lines 124--124 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2254] [2255] [2256] [2257] [2258] Overfull \hbox (18.78088pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2259] [2260] [2261] [2262]) (./MASS-pkg.tex Chapter 16. [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] [2272] [2273] Overfull \hbox (20.58041pt too wide) in paragraph at lines 774--774 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2274] [2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.g lm}) has been already used, duplicate ignored \relax l.1477 ...{confint.glm}{confint-MASS}{confint.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.n ls}) has been already used, duplicate ignored \relax l.1478 ...{confint.nls}{confint-MASS}{confint.nls} [2284] [2285] [2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294] [2295] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2328--2328 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2332--2332 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2296] [2297] [2298] [2299] Underfull \hbox (badness 6559) in paragraph at lines 2616--2619 []\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 and graph-i-cal pa-ram-e-ters. Note that [2300] [2301] [2302] Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo gnormal"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "Poisson"[]\T1/ptm/m/n/10 , [2303] [2304] Underfull \hbox (badness 4686) in paragraph at lines 2962--2964 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2305] [2306] [2307] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3162--3162 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2308] [2309] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3292--3292 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] Underfull \hbox (badness 1845) in paragraph at lines 4091--4093 []\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and [2321] [2322] [2323] [2324] [2325] [2326] [2327] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4585--4585 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2328] [2329] [2330] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2331] [2332] [2333] [2334] [2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343] [2344] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5864--5864 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2345] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") [2346] [2347] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk}) has been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk.1}) h as been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} [2348] [2349] [2350] [2351] [2352] [2353] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6504--6504 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2354] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6592--6592 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2355] [2356] [2357] [2358] [2359] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6979--6979 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2360] Underfull \hbox (badness 3138) in paragraph at lines 7057--7063 []\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c mr/m/n/10 ) = [2361] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7127--7127 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2362] [2363] Underfull \hbox (badness 1389) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than []\T1/pcr/m/n/10 min(p, [2364] [2365] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7366--7366 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2366] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7431--7431 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2367] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm.1}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} [2368] [2369] [2370] [2371] Underfull \hbox (badness 4686) in paragraph at lines 7808--7810 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2372] [2373] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7927--7927 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 7951--7955 []\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m /n/10 NA[]\T1/ptm/m/n/10 s are found. The [2374] [2375] [2376] [2377] [2378] [2379] [2380] [2381] [2382] [2383] [2384] [2385] [2386] [2387] [2388] [2389] [2390] [2391] [2392] [2393] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9331--9331 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2394] Underfull \hbox (badness 2035) in paragraph at lines 9443--9445 []\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\ T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n /10 , Underfull \hbox (badness 1158) in paragraph at lines 9458--9461 []\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/ 10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l arly), [2395] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9540--9540 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub le.eps^0.25) Overfull \hbox (30.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double .eps^0.25,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9545--9545 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2396] [2397] [2398] [2399] [2400] Underfull \hbox (badness 2951) in paragraph at lines 9905--9907 []\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http s : / / lib . stat . cmu . edu / datasets / 1993 . [2401] [2402] [2403] [2404] [2405] [2406] [2407] [2408]) (./Matrix-pkg.tex Chapter 17. Underfull \hbox (badness 10000) in paragraph at lines 35--38 []\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec t to change, and if you Underfull \hbox (badness 10000) in paragraph at lines 35--38 \T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack- age main-tain-ers [2409] Underfull \hbox (badness 1769) in paragraph at lines 89--92 []\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o wn code. Please con-tact us [2410] Underfull \hbox (badness 2229) in paragraph at lines 153--156 []\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm /m/n/10 ob-jects; here, when the first is Underfull \hbox (badness 1147) in paragraph at lines 153--156 \T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor , these ar-gu-ments will be con-cate-nated to a new pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal }) has been already used, duplicate ignored \relax l.182 ...{all.equal}{all.equal-methods}{all.equal} Underfull \hbox (badness 10000) in paragraph at lines 209--212 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[ ][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see [2411] Underfull \hbox (badness 3098) in paragraph at lines 264--266 []\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic func-tion [2412] [2413] Overfull \hbox (15.18042pt too wide) in paragraph at lines 452--452 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2414] Underfull \hbox (badness 5119) in paragraph at lines 492--496 []\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in g from class Underfull \hbox (badness 1668) in paragraph at lines 496--501 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Overfull \hbox (4.38043pt too wide) in paragraph at lines 527--527 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 529--529 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2415] Overfull \hbox (36.7804pt too wide) in paragraph at lines 538--538 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[ c(1:3, 2:3, 3:2)],[] [2416] Overfull \hbox (52.98038pt too wide) in paragraph at lines 654--654 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd iag() -- for the case of *many* (k x k) matrices:[] [2417] Overfull \hbox (96.18033pt too wide) in paragraph at lines 655--655 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(, , ....., ) where each mat_j is a k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 matrix\TS1/pcr/m/n/9 '[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 656--656 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) matrix of class \code{"\linkS4class{dgCMatrix}"}.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 669--669 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri x indexing), but elegant?[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 670--670 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] [2418] Overfull \hbox (9.78043pt too wide) in paragraph at lines 837--837 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2419] Underfull \hbox (badness 1635) in paragraph at lines 919--924 []\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more typ-i-cally ob-tained as the value of Underfull \hbox (badness 10000) in paragraph at lines 929--932 []\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/ n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 932--935 []\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m /n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 935--938 []\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm = [2420] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1008--1008 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2421] Underfull \hbox (badness 10000) in paragraph at lines 1081--1086 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class [2422] Overfull \hbox (3.02814pt too wide) in paragraph at lines 1137--1137 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] [2423] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2}) has been already used, duplicate ignored \relax l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2}) has been already used, duplicate ignored \relax l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods} [2424] Underfull \hbox (badness 10000) in paragraph at lines 1267--1272 []\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/ 10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met h-ods: Underfull \hbox (badness 10000) in paragraph at lines 1322--1329 []\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\ T1/ptm/m/n/10 is based on CHOLMOD's C-level [2425] [2426] Underfull \hbox (badness 5008) in paragraph at lines 1484--1499 []\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/ m/n/10 : be- [2427] Underfull \hbox (badness 10000) in paragraph at lines 1534--1536 []\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/ n/10 : see Underfull \hbox (badness 1917) in paragraph at lines 1542--1546 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1542--1546 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2428] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1592--1592 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1600--1600 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1609--1609 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*% D %*% L1.))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1610--1610 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L %*% L. ))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1620--1620 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross prod(M), not M[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha s been already used, duplicate ignored \relax l.1625 \aliasA{chol}{chol-methods}{chol} [2429] Underfull \hbox (badness 10000) in paragraph at lines 1730--1734 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 1735--1739 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1735--1739 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2430] [2431] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol2inv} ) has been already used, duplicate ignored \relax l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv} [2432] [2433] Underfull \hbox (badness 1931) in paragraph at lines 1990--1995 []\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/ n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where Underfull \hbox (badness 1226) in paragraph at lines 2005--2008 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1 /ptm/m/n/10 , by class Underfull \hbox (badness 3000) in paragraph at lines 2011--2019 []\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T 1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 2028--2032 []\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1 0 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 2032--2035 []\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm /m/n/10 : [2434] Underfull \hbox (badness 10000) in paragraph at lines 2066--2070 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and [2435] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2121--2121 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] [2436] Underfull \hbox (badness 10000) in paragraph at lines 2252--2259 []\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized is []\T1/pcr/m/n/10 A + Imult * Underfull \hbox (badness 1946) in paragraph at lines 2252--2259 \T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di- [2437] Underfull \hbox (badness 10000) in paragraph at lines 2299--2312 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class Underfull \hbox (badness 10000) in paragraph at lines 2315--2319 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 2320--2324 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 2320--2324 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2438] [2439] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2437--2437 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2438--2438 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2439--2439 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = TRUE, super = TRUE )),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2441--2441 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2442--2442 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2443--2443 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super = TRUE )))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2447--2447 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how = "list", ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2440] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2514--2514 [] \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, - 16, -128, -2, -67))[] Underfull \vbox (badness 10000) has occurred while \output is active [2441] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2610--2610 [] \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4), j=c(2:4,1), x = 2, dimnames=dns))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] [2442] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2621--2621 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr ="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2443] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colMeans} ) has been already used, duplicate ignored \relax l.2696 ...asA{colMeans}{colSums-methods}{colMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums}) has been already used, duplicate ignored \relax l.2704 \aliasA{colSums}{colSums-methods}{colSums} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowMeans} ) has been already used, duplicate ignored \relax l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowSums}) has been already used, duplicate ignored \relax l.2719 \aliasA{rowSums}{colSums-methods}{rowSums} Underfull \hbox (badness 2922) in paragraph at lines 2771--2775 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i n-her-it-ing from Underfull \hbox (badness 1728) in paragraph at lines 2771--2775 \T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr om a Underfull \hbox (badness 1237) in paragraph at lines 2782--2785 [][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][ ]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr /m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1 0 , since [2444] [2445] Underfull \hbox (badness 3547) in paragraph at lines 2888--2891 []\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when [2446] [2447] [2448] [2449] [2450] Underfull \hbox (badness 10000) in paragraph at lines 3290--3293 []\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/ n/10 : com- [2451] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3345--3345 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352 [] \T1/pcr/m/n/9 new( "pMatrix", Dim = c(n, n), Dimnames = c(dn[ 1L], list(NULL)),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list( NULL, NULL),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis t(NULL), dn[2L]),[] [2452] Underfull \hbox (badness 7379) in paragraph at lines 3486--3488 []\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU de-com-po-si-tion of a square [2453] [2454] [2455] Underfull \hbox (badness 4846) in paragraph at lines 3707--3711 []\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and [] [][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr /m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other Underfull \hbox (badness 2717) in paragraph at lines 3712--3716 []\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in more than one pos-si-ble [2456] Underfull \hbox (badness 5231) in paragraph at lines 3757--3762 []\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[ ][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2457] Underfull \hbox (badness 10000) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for Underfull \hbox (badness 6792) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/ n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec- [2458] Underfull \hbox (badness 3646) in paragraph at lines 3901--3904 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a [] [][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally Underfull \hbox (badness 6542) in paragraph at lines 3936--3940 []\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr oup meth-ods re-turn a Underfull \hbox (badness 4518) in paragraph at lines 3945--3951 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2459] Underfull \hbox (badness 10000) in paragraph at lines 3952--3956 []\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j ect of S3 class Underfull \hbox (badness 2318) in paragraph at lines 3962--3966 [][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][ ]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and [2460] [2461] [2462] Underfull \hbox (badness 10000) in paragraph at lines 4219--4221 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2463] [2464] Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2465] Underfull \hbox (badness 2469) in paragraph at lines 4474--4477 []\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][] []\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/ ptm/m/n/10 , via [2466] Underfull \hbox (badness 10000) in paragraph at lines 4497--4502 []\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as Underfull \hbox (badness 2020) in paragraph at lines 4497--4502 [][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 for ef-fi-ciency rea-sons only check the di- Underfull \hbox (badness 1748) in paragraph at lines 4503--4512 \T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion Underfull \hbox (badness 1590) in paragraph at lines 4503--4512 \T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][ ][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see []\T1/pcr/m/n/10 selectMethod("coerce", Underfull \hbox (badness 6675) in paragraph at lines 4559--4566 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][] \T1/ptm/m/n/10 . Underfull \hbox (badness 6493) in paragraph at lines 4559--4566 [][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t ors and ma-tri-ces are co-erced to [2467] Underfull \hbox (badness 10000) in paragraph at lines 4574--4582 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi r-tual class Underfull \hbox (badness 1365) in paragraph at lines 4574--4582 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from [][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4597--4600 []\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/ 10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class [2468] Underfull \hbox (badness 10000) in paragraph at lines 4641--4645 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsCMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 2103) in paragraph at lines 4641--4645 []\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1571) in paragraph at lines 4691--4694 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2469] [2470] Underfull \hbox (badness 1221) in paragraph at lines 4834--4837 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class [] \T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse Matrix"[]\T1/ptm/m/n/10 , by classes Underfull \hbox (badness 1400) in paragraph at lines 4844--4847 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2471] Underfull \hbox (badness 10000) in paragraph at lines 4896--4898 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsyMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1365) in paragraph at lines 4932--4935 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2472] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2473] [2474] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim = c(5L, 5L),[] Underfull \hbox (badness 3635) in paragraph at lines 5139--5143 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla ss Underfull \hbox (badness 10000) in paragraph at lines 5148--5151 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 5151--5155 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2475] [2476] [2477] [2478] Underfull \hbox (badness 10000) in paragraph at lines 5399--5401 []\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir -tual class Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418 [] \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T 1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449 [] [] [2479] Underfull \hbox (badness 7064) in paragraph at lines 5477--5494 []\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = Underfull \hbox (badness 3000) in paragraph at lines 5506--5513 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt m/m/n/10 as Underfull \hbox (badness 2735) in paragraph at lines 5522--5529 []\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/ 10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p tm/m/n/10 . Underfull \hbox (badness 1337) in paragraph at lines 5529--5544 []\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1 0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U, Underfull \hbox (badness 2680) in paragraph at lines 5529--5544 \T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t he same per- Underfull \hbox (badness 5374) in paragraph at lines 5529--5544 \T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1 /pcr/m/n/10 perm []\T1/ptm/m/n/10 slots. Underfull \hbox (badness 2073) in paragraph at lines 5544--5549 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/ ptm/m/n/10 . [2480] [2481] [2482] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753 []\T1/pcr/m/n/9 str(utm <- readHB(system.file("external/utm300.rua" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun terx/counterx.htm[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\T1/pcr/m/n/9 str(jgl <- readMM(system.file("external/jgl009.mtx" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/ msc00726.tar.gz")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary dir./folder:[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] [2483] Overfull \hbox (58.38037pt too wide) in paragraph at lines 5781--5781 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = TRUE), crossprod(L, y))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = FALSE), t crossprod(y, L))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up lo = "U")[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo = "U")[] [2485] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5930--5930 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 6000--6002 []\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min ", "max", [2486] Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 [][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 : []\T1/pcr/m/n/10 .solv e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/ ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 []\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix []\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[] \T1/ptm/m/n/10 . [2487] Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 [][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 : [] \T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up- Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 \T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] * Underfull \hbox (badness 2443) in paragraph at lines 6087--6096 \T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the iden-tity ma-trix, [2488] [2489] [2490] [2491] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.image}) h as been already used, duplicate ignored \relax l.6399 \aliasA{image}{image-methods}{image} [2492] [2493] Underfull \hbox (badness 4120) in paragraph at lines 6495--6498 []\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][ ][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # failed for 2 days ..[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6540--6540 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, border.col=NA)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6541--6541 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd =2, border.col=NA)[] Overfull \hbox (144.78027pt too wide) in paragraph at lines 6545--6545 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] [2494] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a nti-aliasing[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6556--6556 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2495] Underfull \hbox (badness 10000) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and oth-ers listed by Underfull \hbox (badness 1286) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma -trix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 6687--6690 []\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 3375) in paragraph at lines 6690--6695 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s up-port-ing []\T1/pcr/m/n/10 indMatrix [2496] Underfull \hbox (badness 4156) in paragraph at lines 6701--6703 []\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and Underfull \hbox (badness 1337) in paragraph at lines 6707--6711 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : Kro-necker prod-uct of Underfull \hbox (badness 1776) in paragraph at lines 6717--6726 []\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1 0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1 /ptm/m/n/10 af-ter Underfull \hbox (badness 1253) in paragraph at lines 6717--6726 \T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and [2497] Underfull \hbox (badness 1509) in paragraph at lines 6810--6812 []\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be a per-mu-ta-tion of Underfull \hbox (badness 10000) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that Underfull \hbox (badness 4441) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/ 10 , i.e., the [2498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6874--6874 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4 )(6 8)(1 10)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h as been already used, duplicate ignored \relax l.6888 \aliasA{anyNA}{is.na-methods}{anyNA} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.finite }) has been already used, duplicate ignored \relax l.6895 ...asA{is.finite}{is.na-methods}{is.finite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.infini te}) has been already used, duplicate ignored \relax l.6903 ...is.infinite}{is.na-methods}{is.infinite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.na}) h as been already used, duplicate ignored \relax l.6911 \aliasA{is.na}{is.na-methods}{is.na} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.nan}) has been already used, duplicate ignored \relax l.6918 \aliasA{is.nan}{is.na-methods}{is.nan} [2499] [2500] [2501] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.isSymmetr ic}) has been already used, duplicate ignored \relax l.7077 ...etric}{isSymmetric-methods}{isSymmetric} Overfull \hbox (138.78088pt too wide) in paragraph at lines 7124--7124 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, tol1 = 8 * tol, ...)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7126--7126 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, ...)[] [2502] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7181--7181 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if not "formally"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7185--7185 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2503] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7268--7268 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7295--7295 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7371--7371 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1) , c(12L, 4L)),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7372--7372 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] [2505] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7379--7379 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), d imnames(Kmd)))[] [2506] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kronecker }) has been already used, duplicate ignored \relax l.7453 ...kronecker}{kronecker-methods}{kronecker} Underfull \hbox (badness 1062) in paragraph at lines 7552--7555 []\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both [2507] Underfull \hbox (badness 6063) in paragraph at lines 7578--7581 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2508 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,ndiMatr ix,Matrix.Rdash.method}) has been already used, duplicate ignored ...shipout:D \box_use:N \l_shipout_box \__shipout_drop_firstpage_... l.7691 C lass \code{"\LinkA{sparseMatrix}{sparseMatrix.Rdash.class}"}, by cla... ] Underfull \hbox (badness 2635) in paragraph at lines 7738--7743 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 7738--7743 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 7746--7749 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2509] Underfull \hbox (badness 10000) in paragraph at lines 7804--7814 []\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T 1/ptm/m/n/10 ) or in com-pressed column-oriented form (class Underfull \hbox (badness 1242) in paragraph at lines 7804--7814 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\ T1/ptm/m/n/10 --in [2510] Underfull \hbox (badness 3179) in paragraph at lines 7886--7889 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2511] Underfull \hbox (badness 10000) in paragraph at lines 7971--7974 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2512] Underfull \hbox (badness 10000) in paragraph at lines 8032--8035 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2513] [2514] [2515] Underfull \hbox (badness 10000) in paragraph at lines 8270--8273 []\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm /m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x , Underfull \hbox (badness 1490) in paragraph at lines 8292--8294 []\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/ m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][ ] []\T1/ptm/m/n/10 and (one case of) [2516] pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rpcent.* .Rpcent.}) has been already used, duplicate ignored \relax l.8313 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.crossprod }) has been already used, duplicate ignored \relax l.8387 ...A{crossprod}{matmult-methods}{crossprod} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.tcrosspro d}) has been already used, duplicate ignored \relax l.8463 ...tcrossprod}{matmult-methods}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 8549--8555 \T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/ pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn [2517] Underfull \hbox (badness 10000) in paragraph at lines 8618--8621 []\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 3557) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr ix mul-ti-pli-ca-tion. Mul-ti- Underfull \hbox (badness 6608) in paragraph at lines 8626--8630 \T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix Underfull \hbox (badness 1552) in paragraph at lines 8636--8637 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2518] [2519] [2520] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.8859 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 8933--8936 []\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a Underfull \hbox (badness 10000) in paragraph at lines 8949--8952 [2521] Underfull \hbox (badness 10000) in paragraph at lines 8958--8960 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2522] [2523] Underfull \hbox (badness 10000) in paragraph at lines 9128--9132 []\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch KaufmanFactorization[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9151--9153 []\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm = Underfull \hbox (badness 10000) in paragraph at lines 9168--9171 []\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with Underfull \hbox (badness 3019) in paragraph at lines 9177--9180 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T 1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and [2524] Underfull \hbox (badness 10000) in paragraph at lines 9181--9183 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization []\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 9196--9199 []\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct -ing ma-trix fac-tors from Underfull \hbox (badness 1062) in paragraph at lines 9225--9228 []\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both Underfull \hbox (badness 6063) in paragraph at lines 9257--9260 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2525] Underfull \hbox (badness 3312) in paragraph at lines 9314--9316 []\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 [] \T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <- [2526] [2527] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9417--9417 [] \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e -15)# seen rel.d.= 1.46e-16[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9457--9457 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] [2528] Underfull \hbox (badness 2635) in paragraph at lines 9510--9515 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 9510--9515 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 9518--9521 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2529] Underfull \hbox (badness 2521) in paragraph at lines 9586--9592 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2530] Underfull \hbox (badness 1867) in paragraph at lines 9699--9701 []\T1/ptm/m/n/10 fast sim- [2531] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.norm}) ha s been already used, duplicate ignored \relax l.9741 \aliasA{norm}{norm-methods}{norm} [2532] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9836--9836 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9837--9837 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9838--9838 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Underfull \hbox (badness 2401) in paragraph at lines 9883--9893 []\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n /10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri x[]\T1/ptm/m/n/10 , [2533] Underfull \hbox (badness 3179) in paragraph at lines 9954--9957 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2534] Underfull \hbox (badness 10000) in paragraph at lines 10034--10037 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2535] Underfull \hbox (badness 10000) in paragraph at lines 10098--10101 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2536] Underfull \hbox (badness 10000) in paragraph at lines 10172--10174 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2537] [2538] [2539] Underfull \hbox (badness 10000) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot h-ers listed by Underfull \hbox (badness 8189) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t rix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 10389--10393 []\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 2460) in paragraph at lines 10397--10403 []\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the in-verse per-mu-ta-tion ma-trix, [2540] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10467--10467 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10470--10470 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m ax.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10472--10472 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10476--10476 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] [2541] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10477--10477 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 10502--10512 []\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of [] \T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should Underfull \hbox (badness 10000) in paragraph at lines 10502--10512 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2542] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}) has been already used, duplicate ignored \relax l.10604 \aliasA{qr}{qr-methods}{qr} [2543] [2544] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10736--10736 [] \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro ssprod(A1, b))))[] [2545] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10752--10752 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10753--10753 [] \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war ning {FIXME} ![] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10796--10796 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2546] Underfull \hbox (badness 2005) in paragraph at lines 10848--10854 []\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 qr[][][](x, tol, Underfull \hbox (badness 10000) in paragraph at lines 10865--10868 []\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 , it cor-re-sponds to [2547] [2548] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10962--10962 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/ n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale free"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10978--10978 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol = 1e-7)) # all 14[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10985--10985 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L))) # war ning+ ~1.5 sec (2013)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10986--10986 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con siderably faster![] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h as been already used, duplicate ignored \relax l.11005 \aliasA{rcond}{rcond-methods}{rcond} [2549] [2550] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11121--11121 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2551] [2552] Underfull \hbox (badness 2150) in paragraph at lines 11287--11295 \T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n /10 is not [2553] [2554] Underfull \hbox (badness 5147) in paragraph at lines 11444--11447 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m /n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt m/m/n/10 , by class [2555] Underfull \hbox (badness 3179) in paragraph at lines 11459--11462 []\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/ 10 : com-putes [2556] [2557] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11623--11623 [] \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler ance = 1e-13)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h as been already used, duplicate ignored \relax l.11633 \aliasA{solve}{solve-methods}{solve} [2558] Overfull \hbox (90.78088pt too wide) in paragraph at lines 11757--11757 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] Underfull \hbox (badness 1147) in paragraph at lines 11769--11775 []\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/ n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy -ing []\T1/pcr/m/n/10 NROW(b) == Underfull \hbox (badness 3460) in paragraph at lines 11819--11824 []\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w here Underfull \hbox (badness 2359) in paragraph at lines 11825--11839 []\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and [2559] Overfull \hbox (52.98038pt too wide) in paragraph at lines 11892--11892 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re ally, a is singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11896--11896 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2560] Underfull \hbox (badness 10000) in paragraph at lines 11919--11922 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (12.78088pt too wide) in paragraph at lines 11936--11936 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11938--11938 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse,[] Underfull \hbox (badness 1648) in paragraph at lines 11947--11949 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, Underfull \hbox (badness 10000) in paragraph at lines 11955--11958 []\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or (co-er-ca-ble to) Underfull \hbox (badness 2591) in paragraph at lines 11955--11958 []\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c on-trasts to be ap-plied to the Underfull \hbox (badness 10000) in paragraph at lines 11966--11970 []\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for Underfull \hbox (badness 2828) in paragraph at lines 11966--11970 []\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1 /pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for [2561] Underfull \hbox (badness 1668) in paragraph at lines 11981--11986 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Underfull \hbox (badness 3291) in paragraph at lines 12008--12013 []\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][ ]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be Underfull \hbox (badness 2073) in paragraph at lines 12008--12013 \T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n /10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of class [2562] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12061--12061 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M) == c(0, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12062--12062 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M) == c(3, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12063--12063 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2563] Underfull \hbox (badness 2961) in paragraph at lines 12125--12128 []\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m /n/10 : com- Overfull \hbox (9.78043pt too wide) in paragraph at lines 12168--12168 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package = "Matrix")),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12179--12179 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2564] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12186--12186 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12189--12189 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \hbox (badness 10000) in paragraph at lines 12214--12216 []\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion via calls such as Overfull \hbox (0.78088pt too wide) in paragraph at lines 12221--12221 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2565] Underfull \hbox (badness 2261) in paragraph at lines 12259--12265 \T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi r-tual classes [2566] Underfull \hbox (badness 10000) in paragraph at lines 12348--12351 []\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][ ](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and Overfull \hbox (4.38043pt too wide) in paragraph at lines 12361--12361 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x)) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12365--12365 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12366--12366 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12371--12371 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims = c(10,20)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12374--12374 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2567] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12397--12397 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted if necessary:[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12398--12398 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 1:6, dimnames = dn)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12424--12424 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep resentations.[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 12427--12427 [] \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack age = "SparseM"))) {[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12429--12429 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] [2568] Underfull \hbox (badness 6842) in paragraph at lines 12519--12522 []\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\ T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods Underfull \hbox (badness 10000) in paragraph at lines 12554--12558 [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences, such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or [2569] [2570] Underfull \hbox (badness 2961) in paragraph at lines 12738--12741 []\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m /n/10 : com- [2571] Underfull \hbox (badness 3229) in paragraph at lines 12816--12820 []\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][] []\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][] \T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 , [2572] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12856--12856 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12864--12864 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12867--12867 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \vbox (badness 10000) has occurred while \output is active [2573] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12886--12886 [] \T1/pcr/m/n/9 ae2(qrc <- qr.coef (qr.A, b), with(e.qr.A, solve(R1 %*% P 2., t(qrQ)) %*% b))[] Underfull \hbox (badness 5036) in paragraph at lines 12921--12923 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a [2574] Underfull \hbox (badness 2970) in paragraph at lines 13044--13050 []\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/ n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac- Underfull \hbox (badness 3679) in paragraph at lines 13044--13050 \T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 " lsparseVector"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13089--13092 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2575] Underfull \hbox (badness 10000) in paragraph at lines 13123--13128 []\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/ m/n/10 logical[][][] []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 13141--13143 [][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*, [2576] Underfull \vbox (badness 10000) has occurred while \output is active [2577] Overfull \hbox (24.78088pt too wide) in paragraph at lines 13237--13237 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do uble(0L)) Underfull \hbox (badness 2310) in paragraph at lines 13264--13270 [][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more usual con-struc-tor of such ma-tri-ces. Then, [2578] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.Rdash. }) has been already used, duplicate ignored \relax l.13316 ...\Rdash{}}{subassign-methods}{[<.Rdash.} Underfull \hbox (badness 6910) in paragraph at lines 13403--13405 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2579] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[}) has b een already used, duplicate ignored \relax l.13450 \aliasA{[}{subscript-methods}{[} [2580] Underfull \hbox (badness 2591) in paragraph at lines 13585--13590 \T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n /10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or [2581] Underfull \hbox (badness 2057) in paragraph at lines 13661--13663 []\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe r-ent ma-trix classes, use e.g., Underfull \hbox (badness 6396) in paragraph at lines 13670--13674 []\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o r [2582] Underfull \hbox (badness 7722) in paragraph at lines 13675--13680 []\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix , in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 , [2583] Underfull \hbox (badness 6641) in paragraph at lines 13752--13755 []\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as () []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h ave meth-ods with Underfull \hbox (badness 5133) in paragraph at lines 13788--13792 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is the vir-tual class of all sparse ma-tri-ces coded in Underfull \hbox (badness 2818) in paragraph at lines 13788--13792 \T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c re-ated from it. See [2584] [2585] Underfull \hbox (badness 1668) in paragraph at lines 13915--13918 [][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes [2586] Underfull \hbox (badness 10000) in paragraph at lines 14026--14032 []\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r e-trieved in 2008 from [2587] [2588] [2589]) (./boot-pkg.tex [2590] Chapter 18. [2591] [2592] [2593] [2594] [2595] [2596] [2597] Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f" , "w"), [2598] Underfull \hbox (badness 1325) in paragraph at lines 570--577 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r e-quired. Pos-si-ble Underfull \hbox (badness 1275) in paragraph at lines 585--590 []\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m ulti-sample prob- [2599] [2600] [2601] Underfull \hbox (badness 1881) in paragraph at lines 826--828 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 6493) in paragraph at lines 853--857 [][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T 1/ptm/m/n/10 , [2602] Overfull \hbox (4.38043pt too wide) in paragraph at lines 887--887 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, data = nuke)[] Underfull \vbox (badness 10000) has occurred while \output is active [2603] [2604] [2605] Underfull \hbox (badness 1496) in paragraph at lines 1084--1093 []\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari- ance of the Underfull \hbox (badness 2005) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i n-ter-vals. If it Underfull \hbox (badness 2343) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/ n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to Underfull \hbox (badness 2150) in paragraph at lines 1105--1111 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa ult value is [2606] [2607] [2608] [2609] Underfull \hbox (badness 1571) in paragraph at lines 1445--1447 []\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis- [2610] [2611] [2612] [2613] [2614] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix( 1,n,2), [2615] [2616] [2617] Underfull \vbox (badness 10000) has occurred while \output is active [2618] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4) + strata(ulcer),[] [2619] Underfull \hbox (badness 6268) in paragraph at lines 2084--2086 []\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch an-ning House. [2620] [2621] [2622] Underfull \hbox (badness 1565) in paragraph at lines 2338--2343 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori g-i-nal data set [2623] Underfull \hbox (badness 4595) in paragraph at lines 2363--2368 \T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat istic []\T1/ptm/m/n/10 is called. Underfull \hbox (badness 1881) in paragraph at lines 2432--2434 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 2057) in paragraph at lines 2440--2441 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][] \T1/ptm/m/n/10 , [2624] [2625] Underfull \hbox (badness 1077) in paragraph at lines 2536--2540 []\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m /n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1 0 is the sam-ple Underfull \hbox (badness 1112) in paragraph at lines 2536--2540 \T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr /m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T 1/ptm/m/n/10 is used. This is mul-ti-plied by [2626] [2627] [2628] [2629] [2630] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25, Overfull \hbox (18.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 EL.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25,[] [2631] [2632] [2633] Underfull \hbox (badness 3861) in paragraph at lines 3105--3108 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack .after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\ T1/ptm/m/n/10 , [2634] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1 :ncol(mat)) [2635] [2636] [2637] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling [2638] [2639] [2640] [2641] [2642] [2643] [2644] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838 [] \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q = NULL)[] [2645] [2646] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 = grav.z0[3])[] [2647] [2648] [2649] [2650] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259 []\T1/pcr/m/n/9 # To draw the jackknife-after-bootstrap plot for the head siz e data as in [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 4362--4364 []\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o f Underfull \hbox (badness 1430) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to [2653] [2654] [2655] [2656] [2657] [2658] [2659] [2660] [2661] Underfull \hbox (badness 3000) in paragraph at lines 4959--4962 []\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put of a call to [2662] [2663] [2664] [2665] Underfull \hbox (badness 2293) in paragraph at lines 5238--5241 []\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the boot-strap Underfull \hbox (badness 1668) in paragraph at lines 5238--5241 \T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl os-est to [2666] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat a = grav1[, 2])[] [2667] [2668] [2669] [2670] [2671] [2672] [2673] [2674] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c ity.sp1$spa[1][] [2675] Underfull \hbox (badness 1127) in paragraph at lines 5988--6006 []\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then [2676] Underfull \hbox (badness 2837) in paragraph at lines 6021--6024 []\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s addle.distn"[]\T1/ptm/m/n/10 . See the help file for [2677] [2678] [2679] [2680] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and Wright (1991). [2681] [2682] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497 []\T1/pcr/m/n/9 # value of the test statistic 1.84. In the book exponential t ilting was used[] [2683] [2684] [2685] Underfull \hbox (badness 1596) in paragraph at lines 6742--6746 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m ent ex-pected by [2686] [2687] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902 [] \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha = c(0.05, 0.95),[] [2688] [2689] [2690] [2691] [2692] [2693] [2694] [2695]) (./class-pkg.tex [2696] Chapter 19. [2697] [2698] [2699] [2700] [2701] [2702] [2703] [2704] [2705] [2706] [2707] [2708] [2709] [2710] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1008--1008 [] \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, length.out = 1e5)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length .out = 1e5)))[] [2711] [2712]) (./cluster-pkg.tex Chapter 20. [2713] [2714] [2715] Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253 [] \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met hod = 0.5)[iC]) ,[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254 [] \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, -.5))[iC]),[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255 [] \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, +.5))[iC]))[] [2716] [2717] [2718] [2719] Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519 [] \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot = axes,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523 [] \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5, ...)[] [2720] [2721] Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638 [] \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c orrect.d = TRUE)[] [2722] [2723] [2724] Underfull \hbox (badness 2941) in paragraph at lines 792--795 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\ T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 cl[,i] <- clara(xclara, nCl, medoids.x = FALSE, rngR = TRUE )$clustering[] [2725] Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo r this seed):[] Underfull \hbox (badness 10000) in paragraph at lines 882--884 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2726] Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2727] Underfull \hbox (badness 4872) in paragraph at lines 992--994 []\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is Underfull \hbox (badness 1342) in paragraph at lines 1006--1010 []\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in 2012, [2728] Underfull \hbox (badness 2503) in paragraph at lines 1092--1096 []\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen eChip. R pack-age ver- [2729] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118 [] \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE. factor = SEf)))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1144--1144 [] \T1/pcr/m/n/9 gskmn <- clusGap(x, FUNcluster = kmeans, nstart = 20, K.max = 8, B = 60)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1146--1146 [] \T1/pcr/m/n/9 plot(gskmn, main = "clusGap(., FUNcluster = kmeans, n.start= 20, B= 60)")[] Underfull \vbox (badness 10000) has occurred while \output is active [2730] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1205--1209 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 com-po-nent, e.g., for [2731] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281 [] \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1, cex.txt = cex,[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2732] [2733] [2734] Underfull \hbox (badness 10000) in paragraph at lines 1474--1477 Underfull \hbox (badness 10000) in paragraph at lines 1488--1492 [][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][ ][]\T1/ptm/m/n/10 , Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a nd label ellipses[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2735] Underfull \hbox (badness 5741) in paragraph at lines 1562--1565 []\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only [2736] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2737] Underfull \hbox (badness 1552) in paragraph at lines 1680--1682 []\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n /10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se e Underfull \hbox (badness 1629) in paragraph at lines 1694--1698 []\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault \T1/ptm/m/n/10 for all nu-meric Underfull \hbox (badness 3746) in paragraph at lines 1694--1698 \T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T 1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see [2738] Underfull \hbox (badness 1540) in paragraph at lines 1769--1777 \T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1 0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 = [2739] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856 []\T1/pcr/m/n/9 ## Example 2 in reference, extended --- different ways of "m ixed" / "gower":[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860 []\T1/pcr/m/n/9 summary(d0 <- daisy(flower)) # -> the first 3 {0,1} treate d as *N*ominal[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower, type = list(symm = 1:3))) # fi rst 3 treated as *S*ymmetric[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e., *S*ymmetric <==> *N*ominal {fo r 2-level factor}[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated * A*symmetric binary (w/ warning)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1875--1875 []\T1/pcr/m/n/9 Nflow[,1:3] <- lapply(flower[,1:3], function(f) as.integer(as. character(f)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1: 3 as interval[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id entical to treating them as "N" :[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2740] [2741] [2742] [2743] [2744] Underfull \hbox (badness 10000) in paragraph at lines 2212--2215 Underfull \hbox (badness 3179) in paragraph at lines 2223--2229 [][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1 0 ellipsoid []\T1/ptm/m/n/10 ob-jects. [2745] [2746] Underfull \hbox (badness 10000) in paragraph at lines 2380--2383 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2747] Underfull \hbox (badness 1292) in paragraph at lines 2448--2451 []\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10 , the num-ber of it-er-a-tions needed and [2748] Underfull \hbox (badness 6675) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl us-ter-ing, see Underfull \hbox (badness 10000) in paragraph at lines 2480--2483 [][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2749] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555 [] \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f lowerN$color)][] Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/9 levels(flowerN$soil) <- c("1" = "dry", "2" = "normal", "3" = "wet")[levels(flowerN$soil)][] [2750] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2751] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2752] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] [2753] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2754] [2755] [2756] [2757] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3078--3078 []\T1/pcr/m/n/9 ## use obs. 1 & 16 as starting medoids -- same result (for see d above, *and* typically) :[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3080--3080 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3083--3083 []\T1/pcr/m/n/9 keep_nms <- setdiff(names(pamx), c("call", "objective"))# .$ob jective["build"] differ[] [2758] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3187--3187 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2759] [2760] [2761] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3382--3382 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2762] Underfull \hbox (badness 10000) in paragraph at lines 3449--3452 []\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m /n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <- [2763] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3499--3499 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3500--3500 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2764] [2765] [2766] Underfull \hbox (badness 10000) in paragraph at lines 3685--3688 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[] [][](*, Underfull \hbox (badness 1448) in paragraph at lines 3685--3688 \T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is [2767] Underfull \hbox (badness 10000) in paragraph at lines 3748--3753 [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [2768] Underfull \hbox (badness 1748) in paragraph at lines 3810--3815 \T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx <- Underfull \hbox (badness 6268) in paragraph at lines 3822--3825 [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1 0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 , [2769] Underfull \hbox (badness 10000) in paragraph at lines 3883--3885 []\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t he archive of the Uni-ver-sity of Antwer-pen, [2770] [2771] Underfull \hbox (badness 10000) in paragraph at lines 4002--4005 [][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2772] Underfull \hbox (badness 10000) in paragraph at lines 4033--4036 [][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2773] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4086--4086 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] Underfull \hbox (badness 2035) in paragraph at lines 4097--4099 []\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for [2774] [2775] [2776] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4290--4290 [] \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w idth "* s[i]),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4292--4292 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2777] [2778] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4434--4434 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus ter-wise coloring[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4443--4443 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4445--4445 [] \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma in")); frame()[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4448--4448 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol denrod4", "gray20")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4450--4450 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] [2779] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4457--4457 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2780] [2781] [2782] [2783] [2784] [2785] Underfull \hbox (badness 10000) in paragraph at lines 4828--4834 []\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i s slightly more rounded than the one from Underfull \hbox (badness 10000) in paragraph at lines 4844--4846 []\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file `\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side Overfull \hbox (52.98038pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10 01:2000}, {2001:3000} Overfull \hbox (9.78043pt too wide) in paragraph at lines 4859--4859 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s medoid indices == pam(xclara, 3)$id.med[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4869--4869 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2786] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4873--4873 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2787]) (./codetools-pkg.tex [2788] Chapter 21. Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16 [] \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17 [] \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = !all,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18 [] \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress Undefined,[] [2789] Underfull \hbox (badness 10000) in paragraph at lines 65--70 []\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f oldable,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e nterInternal,[] [2791] [2792] [2793]) (./foreign-pkg.tex [2794] Chapter 22. Underfull \hbox (badness 10000) in paragraph at lines 33--37 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2795] Underfull \hbox (badness 1231) in paragraph at lines 67--70 []\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr om, or a [2796] [2797] Underfull \hbox (badness 3601) in paragraph at lines 234--242 []\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m /n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/ 10 , [2798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 292--292 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2799] [2800] [2801] Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2802] Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 502--511 []\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif- fer-ent lev- Underfull \hbox (badness 3746) in paragraph at lines 502--511 \T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul t), the first orig-i-nal value la-bel is Underfull \hbox (badness 2269) in paragraph at lines 502--511 \T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p cr/m/n/10 paste0(label, Underfull \hbox (badness 10000) in paragraph at lines 512--515 []\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with du- Underfull \hbox (badness 10000) in paragraph at lines 512--515 \T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup licated_"[]\T1/ptm/m/n/10 ) if [2803] Underfull \hbox (badness 10000) in paragraph at lines 546--554 []\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / windows / win32 / intl / Underfull \hbox (badness 7613) in paragraph at lines 564--570 []\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute [2804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg ument settings.[] Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2805] Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ ate variables[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt h=w), "\n"))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2806] [2807] Underfull \hbox (badness 10000) in paragraph at lines 808--809 Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2808] Underfull \hbox (badness 10000) in paragraph at lines 865--869 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2809] Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2810] Overfull \hbox (0.78088pt too wide) in paragraph at lines 960--960 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2811] [2812] Underfull \hbox (badness 10000) in paragraph at lines 1072--1073 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2813] [2814] Underfull \hbox (badness 10000) in paragraph at lines 1265--1271 []\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig n:::writeForeignStata[]\T1/ptm/m/n/10 , [2815] Underfull \hbox (badness 2088) in paragraph at lines 1291--1294 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET [2816]) (./lattice-pkg.tex Chapter 23. [2817] Underfull \hbox (badness 2073) in paragraph at lines 114--118 \T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [ ][]$\T1/pcr/m/n/10 http : / / web . archive . org / Underfull \hbox (badness 10000) in paragraph at lines 114--118 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2818] [2819] Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2820] Overfull \hbox (42.78088pt too wide) in paragraph at lines 304--304 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 314--314 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 325--325 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 349--349 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2821] Overfull \hbox (30.78088pt too wide) in paragraph at lines 353--353 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2822] [2823] [2824] Underfull \hbox (badness 1221) in paragraph at lines 656--659 []\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as ar-gu-ments to [2825] [2826] [2827] [2828] Underfull \hbox (badness 2005) in paragraph at lines 999--1011 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of fac-tors will be Underfull \hbox (badness 1199) in paragraph at lines 999--1011 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2829] [2830] Underfull \hbox (badness 1661) in paragraph at lines 1112--1118 []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates [2831] Underfull \hbox (badness 1097) in paragraph at lines 1238--1240 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a [2832] Underfull \hbox (badness 1917) in paragraph at lines 1252--1253 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2833] [2834] Underfull \hbox (badness 1540) in paragraph at lines 1487--1493 []\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/ n/10 plot.trellis[][][][]\T1/ptm/m/n/10 , Underfull \vbox (badness 10000) has occurred while \output is active [2835] Underfull \hbox (badness 10000) in paragraph at lines 1574--1591 [][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 , [2836] [2837] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1662--1662 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2838] Underfull \hbox (badness 2012) in paragraph at lines 1716--1718 []\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[] [][][]\T1/ptm/m/n/10 , which may pass them on to Underfull \hbox (badness 6808) in paragraph at lines 1746--1750 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to Underfull \hbox (badness 10000) in paragraph at lines 1763--1766 []\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1 /ptm/m/n/10 , etc; see [2839] Underfull \hbox (badness 10000) in paragraph at lines 1815--1817 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2840] [2841] [2842] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2056--2056 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] [2843] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2069--2069 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2844] Underfull \hbox (badness 10000) in paragraph at lines 2148--2151 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie d, the value of Underfull \hbox (badness 1320) in paragraph at lines 2148--2151 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2845] [2846] [2847] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2353--2353 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2357--2357 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2848] [2849] [2850] [2851] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2713--2713 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2852] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2745--2745 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2853] Underfull \hbox (badness 2913) in paragraph at lines 2824--2829 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 2824--2829 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as [2854] [2855] Underfull \hbox (badness 6758) in paragraph at lines 2952--2956 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be Underfull \hbox (badness 7576) in paragraph at lines 2952--2956 \T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra ster[][][][]\T1/ptm/m/n/10 . See also Underfull \hbox (badness 10000) in paragraph at lines 2958--2960 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 7256) in paragraph at lines 2995--2995 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr oups[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1609) in paragraph at lines 3008--3014 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti ons should be used, Underfull \hbox (badness 2772) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 both for the false color im-age and the color key (if present). Ef- Underfull \hbox (badness 1400) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n /10 changes the de-fault panel func-tion from Underfull \hbox (badness 2486) in paragraph at lines 3032--3036 []\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for the de-fault panel func-tion [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3137--3137 [] \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3138--3138 [] \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3139--3139 [] \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite = TRUE),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3150--3150 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2858] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3165--3165 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] [2859] Underfull \hbox (badness 2913) in paragraph at lines 3230--3235 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 3230--3235 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as Underfull \hbox (badness 2418) in paragraph at lines 3236--3236 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 groups[]\T1/ptm/m/n/10 , [2860] [2861] [2862] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.parallel} ) has been already used, duplicate ignored \relax l.3517 \aliasA{parallel}{B.08 splom}{parallel} [2863] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3559--3559 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3582--3582 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2864] [2865] [2866] [2867] [2868] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3917--3917 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2869] [2870] Underfull \hbox (badness 2277) in paragraph at lines 4003--4007 []\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault set-tings by Underfull \hbox (badness 2435) in paragraph at lines 4003--4007 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2871] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4100--4100 [] \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito") [c(6, 2, 4, 7, 3, 5, 8)],[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 4102--4102 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4109--4109 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2872] [2873] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4253--4253 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4262--4266 []\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un- spec-i-fied in [2874] Underfull \hbox (badness 3219) in paragraph at lines 4289--4291 []\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i s-sued when Underfull \hbox (badness 1728) in paragraph at lines 4306--4310 []\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren t set-tings (ob-tained by [2875] Underfull \hbox (badness 5161) in paragraph at lines 4371--4375 []\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized, Underfull \hbox (badness 4913) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca n be ob-tained by [2876] Underfull \hbox (badness 1067) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/ 10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[ ]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1735) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and Underfull \hbox (badness 5231) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/ n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10 for [2877] Underfull \hbox (badness 1701) in paragraph at lines 4514--4517 []\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 plot.polygon []\T1/ptm/m/n/10 and [2878] Underfull \hbox (badness 2932) in paragraph at lines 4660--4665 []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , [2879] [2880] [2881] [2882] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4936--4936 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2883] [2884] Underfull \hbox (badness 1558) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1270) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 par.settings[]\T1/ptm/m/n/10 , Underfull \vbox (badness 1092) has occurred while \output is active [2885] Underfull \hbox (badness 10000) in paragraph at lines 5116--5119 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 , by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 . [2886] [2887] Underfull \hbox (badness 1442) in paragraph at lines 5243--5246 []\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and [2888] [2889] [2890] [2891] [2892] Underfull \hbox (badness 3646) in paragraph at lines 5582--5585 [][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw. key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm /m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call y the en-try for Overfull \hbox (36.78088pt too wide) in paragraph at lines 5612--5612 [] \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh ich.given],[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5613--5613 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2893] Underfull \hbox (badness 10000) in paragraph at lines 5695--5698 []\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i -zon-tal. Underfull \hbox (badness 2103) in paragraph at lines 5695--5698 []\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the left of pan-els us-ing [2894] Underfull \hbox (badness 1635) in paragraph at lines 5721--5726 []\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, which is to draw a strip ap-pro-pri-ate for [2895] [2896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5886--5886 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5887--5887 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5890--5890 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5893--5893 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5895--5895 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5901--5901 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5902--5902 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5903--5903 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] [2897] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5904--5904 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5905--5905 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5921--5923 []\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of Underfull \hbox (badness 2376) in paragraph at lines 5932--5934 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2898] Underfull \hbox (badness 2538) in paragraph at lines 6056--6060 \T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and Underfull \hbox (badness 4205) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e x-tra pa-ram-e-ters are passed on to Underfull \hbox (badness 4792) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the se are used (in com-bi-na-tion with [2899] [2900] Underfull \hbox (badness 10000) in paragraph at lines 6220--6224 [][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m /n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 , [2901] Underfull \vbox (badness 10000) has occurred while \output is active [2902] [2903] Underfull \hbox (badness 4242) in paragraph at lines 6367--6372 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2904] [2905] Underfull \hbox (badness 3601) in paragraph at lines 6483--6488 []\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m /n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way round Underfull \hbox (badness 2486) in paragraph at lines 6483--6488 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing [2906] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6569--6569 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2907] [2908] [2909] Underfull \hbox (badness 10000) in paragraph at lines 6768--6772 []\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The Underfull \hbox (badness 10000) in paragraph at lines 6773--6775 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2910] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6869--6869 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6872--6872 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Dark Mint"),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6875--6875 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2911] [2912] [2913] [2914] [2915] Underfull \hbox (badness 1320) in paragraph at lines 7236--7243 []\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p anel func-tion that uses the raster draw- Underfull \hbox (badness 1715) in paragraph at lines 7236--7243 \T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more ef-fi-cient. When us-ing [2916] [2917] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7311--7311 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] Underfull \hbox (badness 10000) in paragraph at lines 7341--7345 []\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments to Underfull \hbox (badness 1584) in paragraph at lines 7341--7345 []\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi s func-tion is passed [2918] [2919] Underfull \hbox (badness 10000) in paragraph at lines 7446--7449 \T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/ m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by Overfull \hbox (101.58032pt too wide) in paragraph at lines 7471--7471 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2920] [2921] Underfull \hbox (badness 2012) in paragraph at lines 7621--7624 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2922] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7667--7667 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2923] [2924] Underfull \hbox (badness 1939) in paragraph at lines 7856--7864 []\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept Underfull \hbox (badness 1163) in paragraph at lines 7856--7864 \T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess " []\T1/ptm/m/n/10 adds a loess fit (same as [2925] Underfull \hbox (badness 2772) in paragraph at lines 7879--7882 []\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b e a list of ar-gu-ments to be sup-plied to [2926] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7950--7950 [] \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y = c(1/6, 4/6)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7960--7960 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2927] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8045--8045 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 8064--8064 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide ntifier, name.type)[] Underfull \vbox (badness 10000) has occurred while \output is active [2928] Underfull \hbox (badness 6428) in paragraph at lines 8113--8113 []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 , [2929] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8201--8201 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid th = 0.1, height = 0.1)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8208--8208 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, rule = "evenodd")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8210--8210 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles /RJ-2012-017/[] [2930] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8214--8214 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon, rule = "none", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8215--8215 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin g", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8216--8216 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod d", col = "grey")[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8275--8275 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2931] Underfull \hbox (badness 1436) in paragraph at lines 8330--8336 []\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c al pa-ram-e-ters for [2932] [2933] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8460--8460 [] \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave rage, grid = FALSE,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8474--8474 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2934] [2935] [2936] [2937] [2938] [2939] Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super pose Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from [2940] [2941] [2942] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9074--9074 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st ack, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9075--9075 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9087--9087 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9106--9109 []\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [ ]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in [2943] Underfull \hbox (badness 1515) in paragraph at lines 9181--9185 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2944] [2945] Underfull \hbox (badness 6316) in paragraph at lines 9287--9292 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2946] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9397--9397 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2947] Underfull \vbox (badness 10000) has occurred while \output is active [2948] [2949] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9536--9536 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2950] Underfull \hbox (badness 1028) in paragraph at lines 9600--9605 \T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r ight.x, right.y, left.name, right.x.name, [2951] [2952] [2953] [2954] [2955] [2956] Underfull \hbox (badness 7238) in paragraph at lines 10045--10049 []\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 10045--10049 []\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4 57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 , [2957] [2958] [2959] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma} ) has been already used, duplicate ignored \relax l.10276 \aliasA{melanoma}{H melanoma}{melanoma} [2960] [2961] [2962] Underfull \hbox (badness 10000) in paragraph at lines 10438--10443 \T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower Overfull \hbox (9.78043pt too wide) in paragraph at lines 10511--10511 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2963] [2964]) (./mgcv-pkg.tex Chapter 24. [2965] [2966] Overfull \hbox (6.78088pt too wide) in paragraph at lines 160--160 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL, Overfull \hbox (18.78088pt too wide) in paragraph at lines 163--163 [] \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret e=FALSE,[] [2967] Overfull \hbox (48.78088pt too wide) in paragraph at lines 165--165 [] \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in tercept=NULL,[] Underfull \hbox (badness 1142) in paragraph at lines 185--189 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from Underfull \hbox (badness 1043) in paragraph at lines 210--215 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2968] [2969] [2970] [2971] Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [2972] Overfull \hbox (4.38043pt too wide) in paragraph at lines 427--427 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2 ,bs=bs,k=k)+[] [2973] [2974] [2975] [2976] [2977] Underfull \hbox (badness 2922) in paragraph at lines 723--724 []\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" []\T1/ptm/m/n/10 and [2978] [2979] Underfull \hbox (badness 1406) in paragraph at lines 793--794 []\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t ing en-vi-ron-ment vari-able [2980] [2981] Underfull \hbox (badness 1158) in paragraph at lines 903--905 []\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe n us-ing pe-nal-ized re-gres-sion [2982] Underfull \hbox (badness 1259) in paragraph at lines 966--967 []\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro -duc-tion with R (2nd edi-tion). [2983] Underfull \vbox (badness 10000) has occurred while \output is active [2984] [2985] [2986] [2987] [2988] [2989] [2990] [2991] [2992] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1502--1502 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1503--1503 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1520--1520 [] \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor e residuals",[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1532--1532 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Underfull \vbox (badness 10000) has occurred while \output is active [2993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1541--1541 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in d]),type="l",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1543--1543 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1574--1574 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights= d,data=surv)[] Underfull \vbox (badness 10000) has occurred while \output is active [2994] [2995] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1657--1657 [] \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid), initial = 0,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1668--1668 [] \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][ nrow(um)] <- 1[] Underfull \vbox (badness 10000) has occurred while \output is active [2996] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1707--1707 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2997] [2998] [2999] [3000] [3001] [3002] [3003] [3004] [3005] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2234--2234 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di screte=TRUE)[] [3006] [3007] [3008] [3009] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2470--2470 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [3010] [3011] [3012] [3013] [3014] [3015] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2827--2827 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2839--2842 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 2852--2856 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3016] Underfull \hbox (badness 1043) in paragraph at lines 2878--2884 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [3017] Underfull \hbox (badness 1389) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 A list spec-i-fy-ing the neigh-bour-hood struc-ture for [][][] \T1/pcr/m/n/10 NCV[][][][]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 2495) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 gives the points dropped for the neigh-bour-hood []\T1/pcr/m/n /10 j[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 d []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 1558) in paragraph at lines 2955--2956 \T1/ptm/m/n/10 of in-dices of points to pre-dict, with cor-re-spond-ing end-poi nts []\T1/pcr/m/n/10 md[]\T1/ptm/m/n/10 . So [3018] [3019] Underfull \hbox (badness 1043) in paragraph at lines 3042--3048 \T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v en-tion mech-a-nism de-scribed in [3020] [3021] Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [3022] Underfull \vbox (badness 10000) has occurred while \output is active [3023] Underfull \vbox (badness 10000) has occurred while \output is active [3024] [3025] [3026] [3027] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3505--3505 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, Overfull \hbox (0.78088pt too wide) in paragraph at lines 3506--3506 [] \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F ALSE,[] [3028] [3029] [3030] [3031] [3032] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3841--3841 [] \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco l(x)),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3844--3844 [] \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol (x)),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3845--3845 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [3033] [3034] [3035] [3036] [3037] [3038] [3039] [3040] Underfull \hbox (badness 5189) in paragraph at lines 4321--4325 []\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm /m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms ( see [3041] [3042] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4438--4438 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Underfull \vbox (badness 10000) has occurred while \output is active [3043] [3044] [3045] Underfull \hbox (badness 1184) in paragraph at lines 4605--4609 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [3046] [3047] [3048] [3049] [3050] [3051] [3052] [3053] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5070--5070 [] \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i d=1)+s(x1,id=1)+[] [3054] [3055] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5218--5218 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [3056] [3057] Underfull \hbox (badness 1142) in paragraph at lines 5345--5349 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3058] Underfull \hbox (badness 10000) in paragraph at lines 5417--5426 []\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver- gence fail-ures, con-sider mod-i-fy-ing [3059] [3060] Underfull \hbox (badness 5970) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor -re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm /m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 1418) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1 0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [ ]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project . [3061] Underfull \vbox (badness 10000) has occurred while \output is active [3062] [3063] [3064] [3065] Underfull \hbox (badness 1577) in paragraph at lines 5882--5885 []\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see [] [][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment [3066] Underfull \hbox (badness 2181) in paragraph at lines 5889--5890 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [3067] [3068] [3069] [3070] [3071] [3072] [3073] [3074] [3075] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6388--6388 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app rox=0) Underfull \hbox (badness 6708) in paragraph at lines 6394--6395 []\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(.. .,fit=FALSE) []\T1/ptm/m/n/10 or [3076] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6443--6443 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple[] [3077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6468--6468 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6497--6497 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] Underfull \vbox (badness 10000) has occurred while \output is active [3078] [3079] [3080] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6619--6619 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [3081] [3082] [3083] [3084] [3085] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6947--6947 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6949--6949 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6970--6974 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3086] [3087] [3088] [3089] [3090] [3091] [3092] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7292--7292 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999, all.derivs=FALSE) [3093] [3094] [3095] Underfull \vbox (badness 10000) has occurred while \output is active [3096] Underfull \vbox (badness 10000) has occurred while \output is active [3097] [3098] [3099] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7701--7701 []\T1/pcr/m/n/10 lp(c,A,b,C=NULL,d=NULL,Bi=NULL,maxit=max(1000, nrow(A) * 10), phase1 = FALSE) [3100] [3101] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7817--7817 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want to rule the world.",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7844--7844 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3102] [3103] [3104] [3105] [3106] [3107] [3108] [3109] Underfull \vbox (badness 4805) has occurred while \output is active [3110] [3111] [3112] Underfull \hbox (badness 1242) in paragraph at lines 8461--8462 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3113] [3114] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8548--8548 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3115] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8611--8611 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate d covariates[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8630--8630 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] [3116] [3117] [3118] [3119] [3120] [3121] [3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130] [3131] [3132] [3133] [3134] [3135] [3136] Underfull \vbox (badness 10000) has occurred while \output is active [3137] [3138] Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim .pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3118) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 . [3139] Underfull \hbox (badness 10000) in paragraph at lines 9988--9991 []\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p dTens[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3108) in paragraph at lines 9988--9991 []\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n ot nor-mally be [3140] [3141] [3142] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10202--10202 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10206--10206 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3143] [3144] [3145] Underfull \hbox (badness 1629) in paragraph at lines 10362--10367 []\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion is some-times to clone the [3146] [3147] [3148] [3149] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread s=1,gc.level=0,...)[] Underfull \hbox (badness 1062) in paragraph at lines 10612--10616 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para- [3150] [3151] [3152] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10745--10745 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3153] [3154] [3155] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10906--10906 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi nal grid points[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10907--10907 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1) ,x3=rep(0,n))[] Underfull \vbox (badness 10000) has occurred while \output is active [3156] Underfull \vbox (badness 10000) has occurred while \output is active [3157] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11046--11046 [] \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s mooth deriv i[] [3158] Underfull \hbox (badness 1205) in paragraph at lines 11084--11085 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11084--11085 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for Underfull \hbox (badness 1975) in paragraph at lines 11090--11095 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3159] Underfull \hbox (badness 1205) in paragraph at lines 11174--11175 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11174--11175 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3160] Underfull \hbox (badness 10000) in paragraph at lines 11243--11246 []\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from Underfull \hbox (badness 2057) in paragraph at lines 11243--11246 [][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al -though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [ ]\T1/ptm/m/n/10 are not needed, [3161] Underfull \vbox (badness 10000) has occurred while \output is active [3162] Underfull \hbox (badness 1253) in paragraph at lines 11364--11366 []\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion cri-te-rion re-ported is one of GCV, [3163] [3164] [3165] [3166] [3167] Underfull \hbox (badness 1946) in paragraph at lines 11615--11622 []\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef- fects in a GAM in the same Underfull \hbox (badness 2221) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre s-sion terms. This method Underfull \hbox (badness 2042) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a model: see [3168] [3169] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11695--11695 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11705--11705 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] Underfull \hbox (badness 10000) in paragraph at lines 11736--11739 []\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/ 10 "deviance"[]\T1/ptm/m/n/10 , [3170] [3171] [3172] [3173] [3174] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12037--12037 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU LL,pc=NULL) [3175] [3176] [3177] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12197--12197 []\T1/pcr/m/n/10 scasm(formula,family=gaussian(),data=list(),weights=NULL,subs et=NULL,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 12199--12199 [] \T1/pcr/m/n/10 knots=NULL,sp=NULL,gamma=1,fit=TRUE,G=NULL,drop.unused. levels=TRUE,[] Underfull \hbox (badness 1728) in paragraph at lines 12207--12210 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 12221--12225 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3178] [3179] [3180] Underfull \vbox (badness 10000) has occurred while \output is active [3181] [3182] [3183] [3184] [3185] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12681--12681 [] \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq)) + (eps/del))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12695--12695 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1 0), ~1, ~1),[] Underfull \vbox (badness 10000) has occurred while \output is active [3186] [3187] Underfull \hbox (badness 3861) in paragraph at lines 12797--12800 []\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to model ma-trix X, or, if Overfull \hbox (36.78088pt too wide) in paragraph at lines 12806--12806 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3188] Underfull \hbox (badness 10000) in paragraph at lines 12823--12827 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- [3189] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12886--12886 []\T1/pcr/m/n/10 Sl.setup(G,cholesky=FALSE,no.repara=FALSE,sparse=FALSE,keepS= FALSE) [3190] [3191] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13010--13010 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$ vectors[,ind]))[] Underfull \hbox (badness 1975) in paragraph at lines 13021--13026 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3192] Underfull \hbox (badness 1803) in paragraph at lines 13098--13102 \T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n /10 "NA"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 1502) in paragraph at lines 13110--13122 []\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec [3193] Underfull \hbox (badness 2401) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able . Plot meth-ods can be Underfull \hbox (badness 2970) in paragraph at lines 13127--13131 \T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 , [3194] [3195] [3196] Underfull \hbox (badness 6876) in paragraph at lines 13322--13328 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on e or two vari-ables, spec-i-fied via terms like [3197] Underfull \hbox (badness 10000) in paragraph at lines 13366--13367 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3198] [3199] Underfull \hbox (badness 10000) in paragraph at lines 13489--13490 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3200] Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 []\T1/ptm/m/n/10 Shape con-strained ver-sions for use with [][][]\T1/pcr/m/n/10 scasm[][][] []\T1/ptm/m/n/10 are spec-i-fied by model terms Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 \T1/ptm/m/n/10 like []\T1/pcr/m/n/10 s(x,bs="sc",xt="m+") []\T1/ptm/m/n/10 for a mono-tonic in-creas-ing func-tion, or Overfull \hbox (4.38043pt too wide) in paragraph at lines 13546--13546 [] \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs, m=c(4,3,0))+[] [3201] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13558--13558 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13570--13570 [] \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions and intervals[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13575--13575 [] \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i ntervals away[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13581--13581 [] \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w ild and wide[] Overfull \hbox (3.70428pt too wide) in paragraph at lines 13582--13582 [] \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1 /pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] Underfull \vbox (badness 10000) has occurred while \output is active [3202] Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 \T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or [3203] [3204] Underfull \hbox (badness 10000) in paragraph at lines 13781--13782 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3205] [3206] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13862--13862 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data) ## first deriv penalty[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13863--13863 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi ed 2nd deriv[] [3207] [3208] [3209] Underfull \hbox (badness 10000) in paragraph at lines 14016--14017 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3210] [3211] [3212] [3213] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14266--14266 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3214] Underfull \hbox (badness 10000) in paragraph at lines 14327--14329 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3215] [3216] Underfull \hbox (badness 10000) in paragraph at lines 14486--14489 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met hod a smooth spec-i-fi-ca-tion ob- Underfull \hbox (badness 3312) in paragraph at lines 14486--14489 \T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs ="re",)[]\T1/ptm/m/n/10 . For the Underfull \hbox (badness 7099) in paragraph at lines 14486--14489 []\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\ T1/pcr/m/n/10 "random.effect" [3217] [3218] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14572--14572 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3219] Underfull \hbox (badness 10000) in paragraph at lines 14617--14623 []\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a Underfull \hbox (badness 7832) in paragraph at lines 14617--14623 []\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for- [3220] [3221] [3222] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14830--14830 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] Underfull \vbox (badness 10000) has occurred while \output is active [3223] Underfull \vbox (badness 10000) has occurred while \output is active [3224] Underfull \hbox (badness 10000) in paragraph at lines 14933--14941 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th e sphere, via terms like Underfull \hbox (badness 10000) in paragraph at lines 14959--14960 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3225] [3226] [3227] Underfull \hbox (badness 7613) in paragraph at lines 15104--15107 []\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [ ]\T1/ptm/m/n/10 pro-duced by the Underfull \hbox (badness 1546) in paragraph at lines 15125--15126 []\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a sin-gle smooth-ing pa-ram-e- [3228] Overfull \hbox (128.58029pt too wide) in paragraph at lines 15171--15171 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs ="sz",id=1),data=dat,method="REML")[] [3229] [3230] [3231] Underfull \hbox (badness 3396) in paragraph at lines 15317--15320 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an y num-ber of vari-ables, spec-i-fied via terms like Underfull \hbox (badness 10000) in paragraph at lines 15362--15364 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3232] [3233] [3234] [3235] [3236] [3237] Underfull \hbox (badness 10000) in paragraph at lines 15653--15655 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see [3238] Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/ 10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical .Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 , [3239] [3240] [3241] [3242] [3243] Underfull \hbox (badness 2158) in paragraph at lines 15970--15970 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3244] Overfull \hbox (48.78088pt too wide) in paragraph at lines 16049--16049 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3245] [3246] Overfull \hbox (12.78088pt too wide) in paragraph at lines 16183--16183 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3247] [3248] Underfull \hbox (badness 4846) in paragraph at lines 16314--16317 []\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or es-ti-ma-tors if [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262] [3263] [3264] [3265] [3266] [3267] [3268] Overfull \hbox (120.78088pt too wide) in paragraph at lines 17541--17541 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3269] Underfull \hbox (badness 1715) in paragraph at lines 17563--17564 []\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object $Vc []\T1/ptm/m/n/10 (if avail-able) from a [3270] [3271] [3272] Overfull \hbox (54.78088pt too wide) in paragraph at lines 17754--17754 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r ow=-1,ar.w=-1, Overfull \hbox (48.78088pt too wide) in paragraph at lines 17756--17756 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar. w=-1,lt=NULL)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17758--17758 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 17759--17759 []\T1/pcr/m/n/10 ijXVXd(i,j,X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,r t=NULL)[] [3273] Underfull \hbox (badness 10000) in paragraph at lines 17779--17780 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 17779--17780 []\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le cted by []\T1/pcr/m/n/10 ar.row [3274] [3275] [3276] [3277] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17977--17977 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li near predictor,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17978--17978 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17990--17990 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3278] [3279] [3280]) (./nlme-pkg.tex Chapter 25. [3281] Underfull \hbox (badness 1009) in paragraph at lines 78--87 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3282] Underfull \hbox (badness 1009) in paragraph at lines 168--177 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3283] [3284] [3285] [3286] Overfull \hbox (4.38043pt too wide) in paragraph at lines 448--448 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3287] [3288] [3289] Overfull \hbox (20.58041pt too wide) in paragraph at lines 589--589 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 605--605 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n on-sensical!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 608--608 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 615--615 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3290] [3291] [3292] [3293] [3294] [3295] [3296] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1078--1078 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3297] [3298] Underfull \hbox (badness 5446) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel .htm[]\T1/ptm/m/n/10 ', the first edi-tion of [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 1617--1620 [][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed. effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 3780) in paragraph at lines 1634--1636 []\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a ted with each com-po-nent of the [3306] [3307] [3308] [3309] [3310] Underfull \hbox (badness 2042) in paragraph at lines 1975--1981 \T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , [3311] [3312] Underfull \hbox (badness 1132) in paragraph at lines 2127--2129 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3313] [3314] Underfull \hbox (badness 4168) in paragraph at lines 2238--2244 [][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [3315] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2263--2263 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 2816--2820 [][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[ ][][][]\T1/ptm/m/n/10 , [3324] [3325] [3326] [3327] [3328] [3329] [3330] [3331] [3332] [3333] [3334] [3335] Underfull \hbox (badness 6493) in paragraph at lines 3548--3556 [][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T 1/ptm/m/n/10 , [3336] [3337] [3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348] [3349] [3350] [3351] [3352] [3353] [3354] [3355] [3356] [3357] [3358] Underfull \hbox (badness 10000) in paragraph at lines 5116--5120 [][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 , [3359] [3360] [3361] [3362] [3363] [3364] [3365] Underfull \hbox (badness 10000) in paragraph at lines 5540--5543 [][][]\T1/pcr/m/n/10 getGroups.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGro ups.gls[][][][]\T1/ptm/m/n/10 , [3366] [3367] [3368] [3369] [3370] [3371] [3372] [3373] [3374] Underfull \hbox (badness 2799) in paragraph at lines 6044--6050 \T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" [] \T1/ptm/m/n/10 for the random-effects [3375] Underfull \hbox (badness 7133) in paragraph at lines 6105--6109 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3376] Underfull \hbox (badness 2057) in paragraph at lines 6194--6205 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][] \T1/ptm/m/n/10 , [3377] Underfull \hbox (badness 10000) in paragraph at lines 6258--6260 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3378] [3379] [3380] [3381] Underfull \hbox (badness 7133) in paragraph at lines 6505--6509 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3382] Underfull \hbox (badness 10000) in paragraph at lines 6602--6608 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 , Overfull \hbox (54.78088pt too wide) in paragraph at lines 6629--6629 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3383] Underfull \hbox (badness 10000) in paragraph at lines 6667--6669 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3384] [3385] [3386] [3387] Underfull \hbox (badness 10000) in paragraph at lines 6936--6943 [][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff GroupedData[][][][]\T1/ptm/m/n/10 , [3388] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6954--6954 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6959--6959 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 6981--6983 []\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr oupedData []\T1/ptm/m/n/10 ob-ject or a [3389] [3390] [3391] Underfull \hbox (badness 10000) in paragraph at lines 7196--7202 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.lmeStruct[][][][]\T1/ptm/m/n/10 , [3392] [3393] [3394] Underfull \hbox (badness 1997) in paragraph at lines 7341--7349 []\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial -iza-tion and op-ti- Underfull \hbox (badness 2205) in paragraph at lines 7341--7349 \T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n /10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20, Underfull \hbox (badness 3118) in paragraph at lines 7364--7367 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/ n/10 , [3395] [3396] [3397] Underfull \hbox (badness 3354) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/ 10 which []\T1/ptm/m/n/10 is not equal to [3398] [3399] [3400] [3401] [3402] [3403] [3404] [3405] Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/ ptm/m/n/10 , [3406] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8144--8144 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8153--8175 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3407] [3408] [3409] [3410] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8418--8418 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, Underfull \hbox (badness 1189) in paragraph at lines 8443--8445 []\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion per-mit-ted for [3411] Underfull \hbox (badness 10000) in paragraph at lines 8466--8468 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is Overfull \hbox (9.78043pt too wide) in paragraph at lines 8509--8509 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3412] [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] Underfull \hbox (badness 10000) in paragraph at lines 9266--9273 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 9277--9277 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3424] [3425] [3426] [3427] [3428] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix.1} ) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3429] Underfull \hbox (badness 10000) in paragraph at lines 9648--9651 []\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a s Underfull \hbox (badness 3108) in paragraph at lines 9692--9695 []\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive -definite Underfull \hbox (badness 2521) in paragraph at lines 9692--9695 \T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10 . Must have the same di-men-sions as [3430] [3431] [3432] [3433] [3434] [3435] [3436] [3437] [3438] [3439] [3440] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10362--10362 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3441] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10366--10366 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10395--10421 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3442] [3443] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10549--10549 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3444] [3445] [3446] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10700--10700 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10711--10716 []\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [ ][][]\T1/pcr/m/n/10 nlm[][][] Underfull \hbox (badness 6961) in paragraph at lines 10733--10737 []\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control= [3447] Underfull \hbox (badness 10000) in paragraph at lines 10752--10754 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3448] [3449] [3450] [3451] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11048--11048 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* message instead of one *each*[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 11049--11049 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3452] [3453] [3454] [3455] [3456] [3457] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11439--11439 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3458] [3459] [3460] [3461] [3462] [3463] Underfull \hbox (badness 6268) in paragraph at lines 11826--11836 [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 , [3464] [3465] [3466] [3467] Underfull \hbox (badness 10000) in paragraph at lines 12087--12093 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 , [3468] [3469] [3470] [3471] [3472] Underfull \hbox (badness 6876) in paragraph at lines 12409--12411 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/ 10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n /10 object []\T1/ptm/m/n/10 will be con-structed from [3473] [3474] Underfull \hbox (badness 2452) in paragraph at lines 12565--12572 [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/ n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 , [3475] Underfull \hbox (badness 10000) in paragraph at lines 12631--12637 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 , [3476] [3477] [3478] [3479] [3480] [3481] [3482] [3483] [3484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13220--13220 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3485] [3486] [3487] [3488] [3489] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13585--13585 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3490] Underfull \hbox (badness 10000) in paragraph at lines 13612--13615 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3491] Underfull \hbox (badness 1838) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/ n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner Underfull \hbox (badness 3713) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1 /pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/ 10 inner Overfull \hbox (12.78088pt too wide) in paragraph at lines 13712--13712 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3492] Underfull \hbox (badness 10000) in paragraph at lines 13719--13722 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a Underfull \hbox (badness 2469) in paragraph at lines 13719--13722 []\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary co-vari-ate and a sin-gle [3493] Underfull \hbox (badness 10000) in paragraph at lines 13827--13830 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3494] [3495] Underfull \hbox (badness 10000) in paragraph at lines 13921--13923 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe dData[][][][]\T1/ptm/m/n/10 , [3496] [3497] [3498] [3499] [3500] [3501] [3502] [3503] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14445--14445 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3504] [3505] [3506] [3507] [3508] [3509] [3510] [3511] [3512] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects.1}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} [3513] [3514] [3515] [3516] [3517] [3518] [3519] [3520] [3521] [3522] [3523] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15734--15734 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles [3524] Underfull \hbox (badness 1009) in paragraph at lines 15786--15795 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3525] [3526] Overfull \hbox (66.78088pt too wide) in paragraph at lines 15933--15933 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3527] [3528] [3529] [3530] [3531] Underfull \hbox (badness 10000) in paragraph at lines 16268--16274 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 summary.reStruct[][][][]\T1/ptm/m/n/10 , [3532] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16300--16300 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3533] [3534] [3535] [3536] [3537] [3538] [3539] Underfull \hbox (badness 1728) in paragraph at lines 16786--16789 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3540] [3541] [3542] [3543] [3544] Underfull \hbox (badness 1803) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite, Underfull \hbox (badness 10000) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Underfull \hbox (badness 7888) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[ ]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object) [3545] Underfull \hbox (badness 10000) in paragraph at lines 17191--17192 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17192--17193 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3546] [3547] [3548] [3549] Underfull \hbox (badness 10000) in paragraph at lines 17441--17449 [][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1 /ptm/m/n/10 , [3550] [3551] [3552] [3553] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17713--17713 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m odel and use Overfull \hbox (25.98041pt too wide) in paragraph at lines 17715--17715 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3554] [3555] [3556] [3557] [3558] [3559] Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rLin[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr am.corSpher[][][][]\T1/ptm/m/n/10 , [3560] Underfull \hbox (badness 3579) in paragraph at lines 18185--18190 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3561] Underfull \hbox (badness 3579) in paragraph at lines 18249--18254 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3562] Underfull \hbox (badness 3579) in paragraph at lines 18312--18317 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3563] Underfull \hbox (badness 1577) in paragraph at lines 18373--18375 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal Underfull \hbox (badness 3579) in paragraph at lines 18375--18380 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3564] Underfull \hbox (badness 3579) in paragraph at lines 18438--18443 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rRatio[][][][]\T1/ptm/m/n/10 , [3565] Underfull \hbox (badness 3579) in paragraph at lines 18510--18515 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3566] [3567] Underfull \hbox (badness 1009) in paragraph at lines 18656--18665 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3568] [3569] Underfull \hbox (badness 1009) in paragraph at lines 18788--18797 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] [3578]) (./nnet-pkg.tex Chapter 26. pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom} ) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom. 1}) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3579] Overfull \hbox (12.78088pt too wide) in paragraph at lines 71--71 [] \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored = FALSE,[] [3580] [3581] [3582] Overfull \hbox (15.18042pt too wide) in paragraph at lines 374--374 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 431--431 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c( 0,0,1),50)),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 434--434 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3584] [3585] Overfull \hbox (15.18042pt too wide) in paragraph at lines 514--514 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3586]) (./rpart-pkg.tex Chapter 27. [3587] [3588] [3589] [3590] Overfull \hbox (36.78088pt too wide) in paragraph at lines 324--324 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse = TRUE, ...)[] [3591] Underfull \hbox (badness 2351) in paragraph at lines 349--353 \T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1 /pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\ T1/ptm/m/n/10 im-plies [3592] [3593] [3594] Underfull \hbox (badness 1442) in paragraph at lines 592--598 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil l be at the hor-i-zon-tal plot co-or-di-nates of [3595] [3596] Overfull \hbox (0.78088pt too wide) in paragraph at lines 738--738 [] \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep = ""),[] Underfull \hbox (badness 10000) in paragraph at lines 771--775 []\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), adds to the la-bel Underfull \hbox (badness 1142) in paragraph at lines 771--775 \T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [ ]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n [3597] [3598] [3599] Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie s, probabilities[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 934--934 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d igits"),[] [3600] [3601] [3602] [3603] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1180--1180 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m ethod, Overfull \hbox (12.78088pt too wide) in paragraph at lines 1181--1181 [] \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos t, ...)[] Underfull \hbox (badness 2846) in paragraph at lines 1243--1245 []\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n /10 rpart []\T1/ptm/m/n/10 al-go-rithm. See [3604] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1287--1287 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the text is clipped[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1303--1303 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c p = 0.01, Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304 [] \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate = 2, xval = 10,[] [3605] [3606] [3607] [3608] [3609] [3610] [3611] Underfull \hbox (badness 1565) in paragraph at lines 1760--1763 []\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val- ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ', [3612] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1854--1854 [] \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n = FALSE,[] [3613] [3614] [3615]) (./spatial-pkg.tex [3616] Chapter 28. [3617] [3618] [3619] [3620] [3621] [3622] Underfull \hbox (badness 10000) in paragraph at lines 420--424 [3623] [3624] [3625] [3626] [3627] [3628] [3629] [3630] [3631] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo}) ha s been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo.1}) has been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} [3632] [3633] [3634] [3635] [3636]) (./survival-pkg.tex Chapter 29. [3637] [3638] Overfull \hbox (31.3804pt too wide) in paragraph at lines 173--173 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data = lung, nmin = 1[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 192--192 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2) # Nearly the same, until t he last point[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 195--195 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease. See section 8.5 of Therneau a nd Grambsch.[] [3639] [3640] Underfull \hbox (badness 6412) in paragraph at lines 284--286 []\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as long as [3641] [3642] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml}) has been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml.1}) h as been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 491--491 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da ta = ovarian) Overfull \hbox (4.38043pt too wide) in paragraph at lines 493--493 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3644] Overfull \hbox (6.78088pt too wide) in paragraph at lines 525--525 [] \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog), lung)[] [3645] Underfull \hbox (badness 1178) in paragraph at lines 605--615 []\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s er-va-tion with co-vari-ate vec-tor z, [3646] [3647] [3648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 798--798 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (30.78088pt too wide) in paragraph at lines 814--814 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef ix = TRUE, [3649] [3650] Overfull \hbox (48.78088pt too wide) in paragraph at lines 897--897 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3651] [3652] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1040--1040 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3653] [3654] Underfull \hbox (badness 1097) in paragraph at lines 1219--1221 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. [3655] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1239--1239 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3656] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1356--1356 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3657] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1417--1417 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c luster=litter, pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h as been already used, duplicate ignored \relax l.1423 ...erapy for Stage B/C colon cancer}{colon} [3658] [3659] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1527--1527 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3660] [3661] Underfull \hbox (badness 1242) in paragraph at lines 1658--1668 \T1/ptm/m/n/10 cor-re-sponds to Har-rell's C statis-tic, which is closely re-la ted to the Gehan-Wilcoxon test; [3662] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1765--1765 []\T1/pcr/m/n/9 options(na.action= na.exclude) # fit2a has many more missings, this causes[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1766--1766 [] \T1/pcr/m/n/9 # predict to return nrow(flchain) values, but has to be set b efore the fit[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1767--1767 []\T1/pcr/m/n/9 fit2a <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + log(creatinine), binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1768--1768 []\T1/pcr/m/n/9 fit2b <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + kappa + lambda, binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1772--1772 []\T1/pcr/m/n/9 coef(cfit) # males and females differ in creatinine, less in kappa/lambda[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1779--1779 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3663] [3664] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1873--1873 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3665] [3666] [3667] [3668] Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 []\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f ol-low the ad-vice of Underfull \hbox (badness 7486) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T 1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe- Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3669] [3670] Underfull \hbox (badness 3861) in paragraph at lines 2315--2319 [][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][] []\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\ T1/ptm/m/n/10 , [3671] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2370--2370 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE,[] [3672] [3673] [3674] [3675] [3676] [3677] [3678] [3679] [3680] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3024--3024 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3681] [3682] [3683] [3684] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3317--3317 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3685] [3686] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3459--3459 []\T1/pcr/m/n/10 fromtimeline(formula, data, subset, id, repeated = FALSE, lvc f = TRUE, [3687] [3688] [3689] Underfull \hbox (badness 1019) in paragraph at lines 3666--3668 []\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma other [3690] [3691] [3692] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3819--3819 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) Overfull \hbox (36.7804pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre ssion", "death")))[] Underfull \hbox (badness 1389) in paragraph at lines 3868--3870 []\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan -Meier plot gen-er-ated with [3693] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3694] [3695] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4020--4020 [] \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3696] [3697] Overfull \hbox (467.89665pt too wide) in alignment at lines 4159--4159 [] [] [3698] [3699] [3700] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4373--4373 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3701] [3702] [3703] [3704] [3705] [3706] [3707] [3708] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4849--4849 [] \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5" , sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3709] [3710] [3711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5044--5044 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno rm(228, 0, 2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5049--5049 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5053--5053 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3712] [3713] [3714] [3715] [3716] [3717] [3718] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5500--5500 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5504--5504 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "arcsin", "none"),[] [3719] [3720] Underfull \hbox (badness 2608) in paragraph at lines 5626--5637 []\T1/ptm/m/n/10 One of []\T1/pcr/m/n/10 "plain"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "log" []\T1/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "log-log"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , or [3721] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5742--5742 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3722] [3723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5898--5898 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] [3724] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5906--5906 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3725] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5992--5992 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6071--6071 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6074--6074 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), maxlabel=25, ...)[] [3727] Underfull \hbox (badness 1852) in paragraph at lines 6148--6150 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt m/m/n/10 , which is the re-sult of the [3728] [3729] [3730] [3731] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6402--6402 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2 ), se.fit=TRUE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6414--6414 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval ues smooth it.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6416--6416 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g ., svyglm, but[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6440--6440 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me thod, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6441--6441 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3732] [3733] [3734] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6604--6604 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3735] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6706--6706 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age + sex, mgus,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6727--6727 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50 ,60,70,100)) +[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6729--6729 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3736] [3737] [3738] [3739] Underfull \hbox (badness 3780) in paragraph at lines 6968--6972 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3740] [3741] [3742] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7218--7218 []\T1/pcr/m/n/9 gfit <- survfit(Surv(day1, day2, status) ~ batch, braking, id= locomotive)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7224--7224 []\T1/pcr/m/n/9 # natural target, an estimate of the number of replacements b y a given time[] [3743] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7226--7226 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need to jitter one[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0)) # first of a tie[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7232--7232 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len gth(temp)]))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7259--7259 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7265--7265 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfb etas")),[] [3744] [3745] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7396--7396 [] \T1/pcr/m/n/10 type="pstate", collapse=FALSE, weighted= collapse, data.f rame=FALSE,[] [3746] [3747] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7495--7495 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 7507--7510 []\T1/pcr/m/n/10 "dfbetas"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "working"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "ldcase"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lsresp "[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and [3748] [3749] [3750] [3751] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7819--7819 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] [3752] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7820--7820 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3753] Underfull \hbox (badness 3780) in paragraph at lines 7895--7899 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3754] [3755] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8016--8016 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE, [3756] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8099--8099 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)] # rem ove duplicate times[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8103--8103 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times= 365*c(3, 5))[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solder}) has been already used, duplicate ignored \relax l.8107 ...ata from a soldering experiment}{solder} [3757] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8168--8168 []\T1/pcr/m/n/9 dummy <- expand.grid(Opening= c("S", "M", "L"), Solder=c("Thin ", "Thick"))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8170--8170 [] \T1/pcr/m/n/9 dimnames=list(Opening= c("S", "M", "L"), Solder=c( "Thin", "Thick")))[] [3758] Underfull \hbox (badness 3780) in paragraph at lines 8207--8211 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther Overfull \hbox (24.78088pt too wide) in paragraph at lines 8236--8236 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3759] [3760] [3761] [3762] [3763] Overfull \hbox (42.78088pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/10 event = TRUE, pyears = TRUE, expected = TRUE, rate = FALSE, r r =expected,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8603--8603 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3764] [3765] [3766] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8761--8761 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8764--8764 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] [3767] [3768] [3769] [3770] [3771] Underfull \hbox (badness 1253) in paragraph at lines 9247--9250 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods first con-struct a sur-vival curve us-ing [3772] [3773] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9345--9345 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3774] [3775] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9483--9483 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3776] [3777] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9683--9683 []\T1/pcr/m/n/9 check <- coxph(Surv(time, status) ~ factor(pat.karno) + strata (inst), lung)[] [3778] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9689--9689 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9714--9714 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 9756--9762 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3779] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9808--9808 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3780] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9894--9894 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3781] [3782] [3783] Underfull \hbox (badness 10000) in paragraph at lines 10114--10119 [][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 , [3784] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10134--10134 [] \T1/pcr/m/n/10 se.fit=TRUE, conf.int=.95, individual=FALSE, stype=2, ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10135--10135 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10140--10140 [] \T1/pcr/m/n/10 se.fit=FALSE, conf.int=.95, individual=FALSE, stype=2 , ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10141--10141 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3785] [3786] [3787] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10363--10363 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3788] Underfull \hbox (badness 1924) in paragraph at lines 10452--10463 \T1/ptm/m/n/10 The log-log op-tion bases the in-ter-vals on the log haz-ard or log(- Underfull \hbox (badness 4441) in paragraph at lines 10504--10514 []\T1/ptm/m/n/10 by de-fault, the surv-fit rou-tines only re-turn in-for-ma-tio n at the [3789] Underfull \hbox (badness 2653) in paragraph at lines 10516--10521 \T1/pcr/m/n/10 ctype=1[]\T1/ptm/m/n/10 , "fleming-harrington" which is equiv-a- lent to []\T1/pcr/m/n/10 stype=2, [3790] [3791] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10712--10712 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3792] [3793] [3794] [3795] [3796] [3797] Overfull \hbox (30.78088pt too wide) in paragraph at lines 11144--11144 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit, survtype, Underfull \hbox (badness 1354) in paragraph at lines 11185--11189 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3798] Overfull \hbox (120.78088pt too wide) in paragraph at lines 11229--11229 []\T1/pcr/m/n/10 survfit_confint(p, se, logse = TRUE, conf.type, conf.int = 0. 95, selow, ulimit = TRUE) [3799] Overfull \hbox (60.78088pt too wide) in paragraph at lines 11288--11288 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3800] [3801] Underfull \hbox (badness 2035) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su rvreg.distributions[][][][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T 1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p tm/m/n/10 , Underfull \hbox (badness 1297) in paragraph at lines 11452--11459 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 ,[]\T1/pcr/m/n/10 "lognormal" []\T1 /ptm/m/n/10 and []\T1/pcr/m/n/10 "loglogistic"[]\T1/ptm/m/n/10 . Oth-er-wise, i t is [3802] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11548--11548 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3803] [3804] [3805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11705--11705 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3806] [3807] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11837--11837 [] \T1/pcr/m/n/9 temp/pi, -2 *x*temp, 2*temp^2*(4*x ^2*temp -1))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11840--11840 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3808] [3809] [3810] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12025--12025 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3811] [3812] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12183--12183 []\T1/pcr/m/n/9 # The first data set contains data on 312 subjects in a clinic al trial plus[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12184--12184 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data set has data[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12190--12190 [] \T1/pcr/m/n/9 protime = tdc(day, protime), alk.phos = tdc(day , alk.phos))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12192--12192 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3813] [3814] Underfull \hbox (badness 3780) in paragraph at lines 12305--12309 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3815] [3816] [3817] [3818] [3819] [3820] Overfull \hbox (12.78088pt too wide) in paragraph at lines 12677--12677 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3821] [3822] [3823]) [3824] No file fullrefman.ind. (./fullrefman.aux) Package rerunfilecheck Warning: File `fullrefman.out' has changed. (rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information) pdfTeX warning (dest): name{Rfn.tree} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.memory.limit} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.viewports} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.xyplot.zoo} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.ellipsePoints} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.ellipse} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.cluster.stats} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chorizon} has been referenced but does not exis t, replaced by a 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Transcript written on fullrefman.log. This is makeindex, version 2.17 [TeX Live 2024] (kpathsea + Thai support). Scanning input file fullrefman.idx..............................done (26091 entries accepted, 117 rejected). Sorting entries...........................................................................................................................................................................................................................................................................................................done (443183 comparisons). Generating output file fullrefman.ind............................done (26612 lines written, 91 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2024-06-01> patch level 2 L3 programming layer <2024-08-30> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2024/02/08 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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[3] [4] Underfull \hbox (badness 6741) in paragraph at lines 144--150 []\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/ 10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4805) in paragraph at lines 144--150 \T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/ n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is Underfull \hbox (badness 4316) in paragraph at lines 144--150 \T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth -er-wise, it is []\T1/pcr/m/n/10 (double.base ^ Underfull \hbox (badness 4454) in paragraph at lines 150--158 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 1028) in paragraph at lines 150--158 \T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base Underfull \hbox (badness 2980) in paragraph at lines 150--158 []\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base Underfull \hbox (badness 1394) in paragraph at lines 150--158 \T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As [5] Underfull \hbox (badness 1142) in paragraph at lines 220--225 []\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [ ]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 (value Underfull \hbox (badness 1478) in paragraph at lines 220--225 []\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t his is the type used by Underfull \hbox (badness 1484) in paragraph at lines 227--232 []\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][] []\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is Underfull \hbox (badness 3009) in paragraph at lines 236--248 []\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel y anal-o-gously to their [6] Underfull \hbox (badness 5652) in paragraph at lines 256--261 []\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/ n/10 long double[]\T1/ptm/m/n/10 ' C type which is Underfull \hbox (badness 6691) in paragraph at lines 256--261 \T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty pe --- this hap-pens on ARM CPUs. In that case Underfull \hbox (badness 1521) in paragraph at lines 256--261 [][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4, [7] Underfull \hbox (badness 10000) in paragraph at lines 376--380 [][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l ar, [8] [9] [10] Underfull \hbox (badness 1072) in paragraph at lines 576--582 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [11] Overfull \hbox (4.38043pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v alue = TRUE)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 646--646 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i gnore.case = TRUE)[] [12] [13] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (60.78088pt too wide) in paragraph at lines 778--778 [] \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g iveErr = FALSE)[] [14] [15] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 938--938 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 959--959 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 987--987 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is bar, current is numeric"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 988--988 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class = FALSE) # TRUE[] Underfull \vbox (badness 10000) has occurred while \output is active [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1013--1013 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE) [18] [19] [20] [21] [22] [23] [24] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [25{/usr/share/texlive/texmf-dist/fonts/enc/dvips/cm-super/cm-super-ts1.enc}] Underfull \hbox (badness 1221) in paragraph at lines 1553--1560 []\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x %/% y := [26] Underfull \hbox (badness 10000) in paragraph at lines 1642--1647 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [27] [28] [29] [30] Underfull \vbox (badness 10000) has occurred while \output is active [31] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1987--1987 [] \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em pty.names = TRUE,[] Underfull \hbox (badness 1303) in paragraph at lines 2019--2022 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] [33] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 names(dL <- as.data.frame(L)) # "NA."[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 names(dL1 <- as.data.frame(L, col.names = names(L))) # "NA."[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 names(dL1.<- as.data.frame(L, check.name s=FALSE)) # "NA"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/9 names(dL2 <- as.data.frame(L, col.names = names(L), check.name s=FALSE)) # NA[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2116--2116 []\T1/pcr/m/n/9 names(dLn <- as.data.frame(L, new.names = TRUE, check.name s=FALSE)) # NA[] [34] [35] [36] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2306--2306 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] Underfull \hbox (badness 10000) in paragraph at lines 2344--2346 []\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which an [37] [38] [39] [40] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2620--2620 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] Overfull \hbox (121.828pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/9 if(file.exists(tab)) { # typically on Windows; on Linux when \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 configure --with-internal-tzcode\TS1/cmtt/m/n/9 `[] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2828--2830 []\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n /10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see [44] [45] [46] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2997--2997 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [47] [48] [49] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3215--3215 []\T1/pcr/m/n/9 try( attr(S, "foo") <- NA ) # no longer possible to mutate pri mitive functions[] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3472--3475 []\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x, [53] [54] [55] [56] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3778--3778 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, lwd = 1, bty="n")[] [57] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3809--3809 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = "" , type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3810--3810 [] \T1/pcr/m/n/9 main = "Bessel Functions J_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3817--3817 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab = "", type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3818--3818 [] \T1/pcr/m/n/9 main = "Bessel Functions K_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3821--3821 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5, sep = ", ")),[] Underfull \vbox (badness 10000) has occurred while \output is active [58] [59] [60] [61] [62] [63] [64] Underfull \hbox (badness 10000) in paragraph at lines 4268--4270 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [65] [66] [67] [68] [69] [70] [71] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4754--4754 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat" , "function",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4755--4755 [] \T1/pcr/m/n/9 "(", "{", "[", "<-", "<<-", "->", "=")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4756--4756 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap ply(E, call) ..[] Overfull \hbox (73.22806pt too wide) in paragraph at lines 4757--4757 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<- \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character , ""))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4758--4758 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \( F) sapply(L, F))))[] [72] Underfull \hbox (badness 4927) in paragraph at lines 4826--4830 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an ob-ject Underfull \hbox (badness 2012) in paragraph at lines 4826--4830 \T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o r [73] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4910--4910 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [74] Underfull \hbox (badness 4595) in paragraph at lines 4984--4987 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [75] [76] [77] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{ ", 1:10, "}:"))[] Underfull \hbox (badness 1199) in paragraph at lines 5179--5185 []\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na med ar-gu- Underfull \hbox (badness 2573) in paragraph at lines 5191--5194 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [78] [79] [80] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5364--5364 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [81] [82] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5538--5538 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc" "c(\" x\", \"y\")"[] [83] Underfull \hbox (badness 2521) in paragraph at lines 5626--5628 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [84] [85] [86] [87] [88] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5920--5920 []\T1/pcr/m/n/9 ## another example, this time with positive, negative, and zer o eigenvalues[] [89] [90] [91] Underfull \hbox (badness 1270) in paragraph at lines 6145--6153 []\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first", [92] [93] [94] [95] [96] [97] [98] [99] Underfull \hbox (badness 1796) in paragraph at lines 6726--6734 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / / [100] [101] [102] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N A_complex_),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6943--6943 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile r, math-library:[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 6945--6945 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [103] [104] Underfull \hbox (badness 1205) in paragraph at lines 7087--7092 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 errorCondition []\T1/ptm/m/n/10 can be used to con-struct er-ror con-di-tions of a par-tic-u- [105] Underfull \hbox (badness 1635) in paragraph at lines 7151--7154 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n /10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 7155--7158 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing [106] Underfull \hbox (badness 1308) in paragraph at lines 7198--7206 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should [107] [108] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7369--7369 []\T1/pcr/m/n/10 zstdfile(description, open = "", encoding = getOption("encodi ng"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7372--7372 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [109] Underfull \hbox (badness 4505) in paragraph at lines 7424--7427 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [110] Underfull \hbox (badness 10000) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 zstdfile[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1092) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 socketAcce pt []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 serverSocket []\T1/ptm/m/n/10 re-turn a con-nec-tion ob-ject [111] [112] [113] [114] Underfull \hbox (badness 10000) in paragraph at lines 7823--7825 []\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in g from Underfull \hbox (badness 3302) in paragraph at lines 7865--7872 []\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n /10 only. This [115] [116] [117] Underfull \vbox (badness 10000) has occurred while \output is active [118] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8115--8115 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [119] [120] [121] [122] [123] Underfull \hbox (badness 10000) in paragraph at lines 8477--8479 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [124] [125] [126] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8637--8637 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] [127] [128] [129] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8872--8872 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [130] [131] Underfull \hbox (badness 10000) in paragraph at lines 8988--8998 []\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 1975) in paragraph at lines 8988--8998 [][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As that is a generic func-tion, meth-ods can be [132] [133] [134] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9156--9156 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 9501--9513 \T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m /n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and [139] [140] [141] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9728--9728 []\T1/pcr/m/n/9 ## Omitting "tzone" attrib, numeric matrix w/ 10 columns (27 x 10, currently) :[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 9730--9730 []\T1/pcr/m/n/9 stopifnot(identical(ncol(leapm), 10L), is.numeric(leapm)) # wa s character in R <= 4.6.0[] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10158--10158 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10160--10160 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO !\n"); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10188--10188 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10189--10189 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [149] [150] Underfull \hbox (badness 5403) in paragraph at lines 10317--10319 []\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b y Underfull \hbox (badness 6063) in paragraph at lines 10336--10338 []\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m /n/10 formula[][][][]\T1/ptm/m/n/10 s, with [151] [152] [153] Underfull \hbox (badness 1603) in paragraph at lines 10566--10569 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11042--11042 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [161] [162] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11161--11161 []\T1/pcr/m/n/10 provideDimnames(x, sep = "", base = list(. = LETTERS), unique = TRUE,[] [163] Underfull \hbox (badness 1917) in paragraph at lines 11212--11217 []\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has Overfull \hbox (36.7804pt too wide) in paragraph at lines 11268--11268 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE RS)))) # recycling[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11269--11269 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [164] [165] Underfull \hbox (badness 1168) in paragraph at lines 11378--11383 []\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\ T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by [166] [167] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11478--11478 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n ames(list(...));[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 11480--11480 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [168] Underfull \hbox (badness 2828) in paragraph at lines 11600--11605 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19 85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr /m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ pcr/m/n/10 https : [169] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11631--11631 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [170] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11706--11706 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] [171] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11783--11783 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4) # scalar product - w/o drop(.), would retur n 1x1 matrix[] [172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11864--11864 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [173] [174] [175] Underfull \hbox (badness 6396) in paragraph at lines 12064--12072 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 10000) in paragraph at lines 12073--12075 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [176] [177] [178] Underfull \hbox (badness 10000) in paragraph at lines 12291--12294 []\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2744) in paragraph at lines 12740--12742 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see Overfull \hbox (20.58041pt too wide) in paragraph at lines 12763--12763 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [186] [187] [188] Underfull \hbox (badness 5288) in paragraph at lines 13017--13019 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of Underfull \hbox (badness 3039) in paragraph at lines 13027--13032 []\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1 0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt m/m/n/10 and [189] Underfull \hbox (badness 10000) in paragraph at lines 13084--13087 []\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 13102--13104 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [190] [191] [192] [193] Underfull \hbox (badness 10000) in paragraph at lines 13353--13355 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc r/m/n/10 where []\T1/ptm/m/n/10 as Underfull \hbox (badness 5970) in paragraph at lines 13395--13397 []\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/ n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1 /ptm/m/n/10 is true, oth-er-wise [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14223--14223 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14967--14969 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 15002--15005 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [216] [217] Underfull \hbox (badness 2573) in paragraph at lines 15139--15141 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 fsep = [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 15300--15302 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [220] [221] Underfull \hbox (badness 10000) in paragraph at lines 15421--15425 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15432--15435 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Overfull \hbox (47.58038pt too wide) in paragraph at lines 15453--15453 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [222] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15479--15479 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [223] Underfull \hbox (badness 10000) in paragraph at lines 15575--15578 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/ ptm/m/n/10 , Overfull \hbox (9.78043pt too wide) in paragraph at lines 15585--15585 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [224] Underfull \hbox (badness 10000) in paragraph at lines 15651--15654 []\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d i-tion ob-ject of class Overfull \hbox (20.58041pt too wide) in paragraph at lines 15668--15668 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [225] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15697--15697 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Overfull \hbox (6.78088pt too wide) in paragraph at lines 15698--15698 [] \T1/pcr/m/n/10 left.open = FALSE, checkSorted = TRUE, checkNA = TRUE)[] [226] Underfull \hbox (badness 3965) in paragraph at lines 15736--15740 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15906--15906 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15907--15907 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [229] [230] [231] [232] Overfull \hbox (63.78036pt too wide) in paragraph at lines 16150--16150 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have type symbol (aka name).[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16153--16153 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [233] Underfull \hbox (badness 1331) in paragraph at lines 16242--16246 []\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 16242--16246 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see Underfull \hbox (badness 10000) in paragraph at lines 16249--16249 []\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , [234] Underfull \hbox (badness 1152) in paragraph at lines 16319--16327 \T1/ptm/m/n/10 stead of []\T1/pcr/m/n/10 format.default(x, ...) []\T1/ptm/m/n/1 0 in \T1/phv/m/n/10 R \T1/ptm/m/n/10 <= 4.5.z) to each el-e-ment of the list (a f-ter Underfull \hbox (badness 6944) in paragraph at lines 16340--16343 [][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 , [235] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16370--16370 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [236] [237] Underfull \hbox (badness 10000) in paragraph at lines 16508--16510 []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p os-si-bly for-mat-ted) num-bers, also in Overfull \hbox (48.78088pt too wide) in paragraph at lines 16528--16528 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16534--16534 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] [238] Underfull \hbox (badness 2790) in paragraph at lines 16541--16544 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for Underfull \hbox (badness 1024) in paragraph at lines 16572--16579 []\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n /10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give [239] Underfull \hbox (badness 10000) in paragraph at lines 16648--16650 []\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/pcr/m/n/10 .format.zeros(*, Underfull \hbox (badness 10000) in paragraph at lines 16670--16675 []\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 2426) in paragraph at lines 16676--16678 []\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10 formatC(123.45, mode = [240] Underfull \hbox (badness 10000) in paragraph at lines 16687--16695 []\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret- ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n /10 can be com-plex (or [241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16796--16796 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big .mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] Underfull \vbox (badness 10000) has occurred while \output is active [242] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16818--16818 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] [243] [244] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17005--17005 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif y = TRUE) [245] [246] [247] [248] [249] [250] [251] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17491--17491 []\T1/pcr/m/n/9 ## very low-level: get()ing the "missing argument", e.g., insi de browser()[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17502--17502 [] \T1/pcr/m/n/9 is.symbol(E$m) # => valid argument to get(), and *also* ge ts \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 missing arg\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] [252] [253] [254] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17684--17684 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [255] Underfull \hbox (badness 2418) in paragraph at lines 17793--17797 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [256] Underfull \hbox (badness 6510) in paragraph at lines 17800--17803 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR UE[]\T1/ptm/m/n/10 , then the sin-gle Underfull \hbox (badness 2326) in paragraph at lines 17837--17844 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][] \T1/ptm/m/n/10 , [257] [258] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17998--17998 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in R-pkg.pot as[] [259] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18019--18019 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f actory" default[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18022--18022 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18052--18052 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [260] [261] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18190--18190 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18193--18193 []\T1/pcr/m/n/10 grepv(pattern, x, ignore.case = FALSE, perl = FALSE, value = TRUE,[] Underfull \hbox (badness 1867) in paragraph at lines 18221--18228 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [263] [264] [265] [266] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18552--18552 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] [267] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18581--18581 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [268] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18637--18637 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [269] [270] [271] [272] [273] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19020--19020 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z < - c(2, 1:9))) [274] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19085--19085 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [275] [276] [277] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19299--19299 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [278] [279] Underfull \hbox (badness 1360) in paragraph at lines 19462--19466 []\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon ly known as `Latin 9', Underfull \hbox (badness 1210) in paragraph at lines 19462--19466 \T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/1 0 "latin9" []\T1/ptm/m/n/10 but GNU [280] [281] [282] Underfull \hbox (badness 1163) in paragraph at lines 19682--19684 []\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1 0 https : / / unicode-[]org . github . io / icu / Overfull \hbox (9.78043pt too wide) in paragraph at lines 19690--19690 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s ettings, we can only reset to the default.[] [283] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19720--19720 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [284] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19814--19814 [] \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se t = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19815--19815 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [285] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19869--19869 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19875--19875 []\T1/pcr/m/n/9 identical(f, g) # TRUE, as bytecode is ignored by default[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19878--19878 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share an environment:[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19884--19884 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [286] [287] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20012--20012 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20020--20020 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] [288] [289] [290] Underfull \hbox (badness 10000) in paragraph at lines 20227--20229 []\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T 1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and [291] [292] Underfull \hbox (badness 2057) in paragraph at lines 20330--20356 [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [293] [294] Underfull \hbox (badness 10000) in paragraph at lines 20528--20535 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [295] [296] [297] Underfull \hbox (badness 4699) in paragraph at lines 20728--20731 []\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , [298] [299] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20862--20862 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [300] [301] Underfull \hbox (badness 4739) in paragraph at lines 20999--21001 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [302] Overfull \hbox (36.7804pt too wide) in paragraph at lines 21054--21054 []\T1/pcr/m/n/9 isSymmetric(D3) # FALSE (as row and co lumn names differ)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21055--21055 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [303] [304] Overfull \hbox (48.78088pt too wide) in paragraph at lines 21171--21171 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl o = "U", ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 21173--21173 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U ", ...)[] [305] Underfull \hbox (badness 2961) in paragraph at lines 21258--21261 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [306] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21319--21319 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val ue & meaning)}:[] [307] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21341--21341 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in solve().. m ust be square[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21343--21343 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular { and norm != "2"}:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21363--21363 [] \T1/pcr/m/n/9 inv_z = solve(A, tol = 1e-19))) # 5.22057e16 on x86_ 64 Linux with GCC[] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 1975) in paragraph at lines 21769--21772 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [314] [315] [316] [317] [318] [319] Underfull \hbox (badness 1077) in paragraph at lines 22192--22197 []\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T 1/ptm/m/n/10 and [320] Underfull \hbox (badness 10000) in paragraph at lines 22206--22213 [][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs / [321] Underfull \hbox (badness 1112) in paragraph at lines 22279--22288 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2970) in paragraph at lines 22337--22340 []\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a Underfull \hbox (badness 2951) in paragraph at lines 22337--22340 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [322] [323] Underfull \hbox (badness 10000) in paragraph at lines 22451--22455 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 22451--22455 [][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self Underfull \hbox (badness 1221) in paragraph at lines 22456--22463 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m /n/10 ar-gu-ment, it lists all avail-able pack- [324] [325] Underfull \hbox (badness 10000) in paragraph at lines 22586--22593 [][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , [] [][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/ m/n/10 , [326] Underfull \hbox (badness 10000) in paragraph at lines 22707--22711 []\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n /10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use [327] [328] [329] [330] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22947--22947 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22952--22952 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] [331] Underfull \hbox (badness 3343) in paragraph at lines 23016--23020 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/ m/n/10 for many more file han-dling func-tions and [332] [333] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] [334] Overfull \hbox (20.58041pt too wide) in paragraph at lines 23172--23172 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [335] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23283--23283 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the same names ![] Overfull \hbox (74.58035pt too wide) in paragraph at lines 23286--23286 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] [336] Underfull \hbox (badness 6380) in paragraph at lines 23333--23341 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [337] Underfull \hbox (badness 2564) in paragraph at lines 23437--23440 []\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/ ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of [338] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23480--23480 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8") # Linux, macOS, other Unix-alikes[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23484--23484 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German [] Overfull \hbox (42.18039pt too wide) in paragraph at lines 23488--23488 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p latform specific ?)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 23495--23495 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C") # turn off loca le-specific sorting,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23497--23497 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [339] [340] [341] Underfull \hbox (badness 1400) in paragraph at lines 23676--23680 [][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[] [][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m /n/10 double[][][] []\T1/ptm/m/n/10 (class [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] Overfull \hbox (17.27832pt too wide) in paragraph at lines 24450--24450 [] \TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 %notin%\TS1/cmtt/m/n/10 ` \T1/pcr/m/n/10 <- function(x, table) match(x, table, nomatch = 0L) == 0L[] [353] [354] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24558--24558 []\T1/pcr/m/n/9 zM ##--> many "NA" matches (= 1) and four non-NAs (3 different ones: 7,9,10)[] [355] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24658--24658 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 24660--24660 []\T1/pcr/m/n/9 ## New (2025-\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 26) option several. ok = "all" (or "all.match", "all_must_match", "all*" ..):[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24663--24663 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = FALSE)) # Error: ... \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 arg\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 must be of length 1[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24665--24665 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = "all")) # Error: ... should be one of "b", "c"[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24667--24667 []\T1/pcr/m/n/9 (m1 <- match.arg(abcd, letters, several.ok = TRUE )) # " a" "b" "c" "d"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 24671--24671 [] \T1/pcr/m/n/9 identical(abcd, match.arg(abcd, abcd, several.ok = " all_must_match")))[] [356] Underfull \hbox (badness 1655) in paragraph at lines 24705--24709 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [357] [358] [359] Underfull \hbox (badness 1292) in paragraph at lines 24959--24962 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, [] [][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [360] [361] [362] [363] [364] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25269--25269 []\T1/pcr/m/n/10 memCompress(from, type = c("gzip", "bzip2", "xz", "zstd", "no ne")) [365] [366] [367] [368] [369] Underfull \hbox (badness 1014) in paragraph at lines 25591--25599 \T1/ptm/m/n/10 al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 https : / / lea rn . microsoft . com / en-[]gb / windows / Underfull \hbox (badness 10000) in paragraph at lines 25591--25599 \T1/pcr/m/n/10 desktop / Memory / physical-[]address-[]extension$[][] \T1/ptm/m /n/10 and [][]$\T1/pcr/m/n/10 https : / / learn . [370] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25665--25665 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 1448) in paragraph at lines 26219--26227 []\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive = [379] Underfull \hbox (badness 3849) in paragraph at lines 26336--26341 []\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter- nally to a char-ac-ter vec-tor (so meth-ods for [380] Underfull \hbox (badness 2165) in paragraph at lines 26414--26420 []\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, Underfull \hbox (badness 1199) in paragraph at lines 26414--26420 \T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\ T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env, Underfull \hbox (badness 3148) in paragraph at lines 26414--26420 \T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi -ron-ment is used as a hash ta-ble, [381] [382] [383] Underfull \hbox (badness 2237) in paragraph at lines 26579--26581 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [384] [385] [386] Underfull \hbox (badness 6188) in paragraph at lines 26807--26810 []\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by [387] [388] [389] Underfull \hbox (badness 1521) in paragraph at lines 27000--27014 \T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 and in case of an er-ror (such as in-suf-fi-cient per- [390] [391] [392] [393] Underfull \hbox (badness 2197) in paragraph at lines 27318--27322 []\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s tartup mes-sages given by Underfull \hbox (badness 4048) in paragraph at lines 27318--27322 []\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use [394] Underfull \hbox (badness 2846) in paragraph at lines 27332--27336 []\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab out the pack- Underfull \hbox (badness 1990) in paragraph at lines 27332--27336 \T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c om-puted pack-age in-for-ma-tion ob-ject and pass this to Overfull \hbox (12.78088pt too wide) in paragraph at lines 27376--27376 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ e.only) Overfull \hbox (0.78088pt too wide) in paragraph at lines 27380--27380 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [395] Underfull \hbox (badness 3568) in paragraph at lines 27428--27434 []\T1/ptm/m/n/10 Argument []\T1/pcr/m/n/10 versionCheck []\T1/ptm/m/n/10 al-low s to re-quire a names-pace with re-stricted (e.g., min-i- Underfull \hbox (badness 2096) in paragraph at lines 27428--27434 \T1/ptm/m/n/10 mal or max-i-mal) pack-age ver-sion ([][][]\T1/pcr/m/n/10 packag eVersion[][][]()[]\T1/ptm/m/n/10 ). If the ver-sion check fails, Underfull \hbox (badness 10000) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space it loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram e con-tain-ing the ex-ported val-ues of a Underfull \hbox (badness 10000) in paragraph at lines 27459--27461 []\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in% [396] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27526--27526 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/ n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangeably here:[] [397] [398] [399] Underfull \hbox (badness 8189) in paragraph at lines 27726--27732 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/ m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode[][][] [400] [401] [402] Underfull \hbox (badness 2591) in paragraph at lines 27952--27960 \T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and [403] [404] [405] [406] [407] Underfull \hbox (badness 1603) in paragraph at lines 28239--28241 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [408] Underfull \hbox (badness 1210) in paragraph at lines 28374--28383 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [409] [410] [411] Underfull \hbox (badness 3271) in paragraph at lines 28601--28604 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [412] [413] [414] Underfull \hbox (badness 3138) in paragraph at lines 28921--28927 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 2088) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by [415] Underfull \hbox (badness 1389) in paragraph at lines 28960--28962 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28993--28999 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 29008--29013 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 1009) in paragraph at lines 29026--29029 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [416] Underfull \hbox (badness 10000) in paragraph at lines 29042--29045 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see [417] [418] [419] [420] [421] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29431--29431 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec, 300X faster[] Underfull \hbox (badness 10000) in paragraph at lines 29444--29448 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [422] [423] Underfull \hbox (badness 1210) in paragraph at lines 29593--29596 []\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex t=s, [424] [425] [426] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29790--29790 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] Underfull \hbox (badness 1478) in paragraph at lines 29820--29825 \T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n /10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string, [427] Underfull \hbox (badness 7133) in paragraph at lines 29880--29886 [][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with Overfull \hbox (42.18039pt too wide) in paragraph at lines 29902--29902 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29914--29914 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] [428] Overfull \hbox (17.87582pt too wide) in paragraph at lines 29927--29927 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/ m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 { }\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0) here[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29930--29930 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29931--29931 []\T1/pcr/m/n/9 ## recycling resulting in zero-length result character(0):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29934--29934 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # -> ".. value is -- not .."[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29935--29935 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29938--29938 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|") # |-- > "foo bar"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29940--29940 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string), "" r esults always[] [429] [430] [431] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30129--30129 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow() # same as nrow(subset(mt cars, cyl == 4))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30147--30147 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [432] Underfull \hbox (badness 1360) in paragraph at lines 30202--30206 []\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn- ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type = [433] [434] [435] [436] Underfull \hbox (badness 2277) in paragraph at lines 30517--30523 \T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing [437] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30552--30552 [] \T1/pcr/m/n/10 (min.n = 1, shrink.sml = 0.25, high.u.bias = 0.8, u5.bias = 1.7,[] [438] Underfull \hbox (badness 1701) in paragraph at lines 30647--30651 []\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/ pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\ T1/pcr/m/n/10 get[][][](name, envir = [439] Underfull \hbox (badness 1796) in paragraph at lines 30716--30719 []\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [440] [441] [442] [443] Underfull \hbox (badness 10000) in paragraph at lines 30928--30931 []\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion [444] Overfull \hbox (47.58038pt too wide) in paragraph at lines 30999--30999 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in "exponential" format[] [445] [446] [447] [448] [449] [450] [451] Underfull \hbox (badness 2961) in paragraph at lines 31487--31490 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [452] [453] Overfull \hbox (25.98041pt too wide) in paragraph at lines 31642--31642 [] \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = rep(c(0,0,1),2))[] [454] [455] [456] [457] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31938--31938 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3 \u147b\u203c")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31949--31949 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31960--31960 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow ed (parse errors)[] Underfull \vbox (badness 10000) has occurred while \output is active [458] [459] Underfull \hbox (badness 7415) in paragraph at lines 32057--32063 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use Overfull \hbox (42.18039pt too wide) in paragraph at lines 32081--32081 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [460] Overfull \hbox (6.78088pt too wide) in paragraph at lines 32127--32127 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [461] [462] Underfull \hbox (badness 3713) in paragraph at lines 32273--32284 []\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm /m/n/10 (not [463] [464] Underfull \hbox (badness 6284) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Source code for-merly at []\T1/pcr/m/n/10 http://www.math.keio.a c.jp/~matumoto/emt.html[]\T1/ptm/m/n/10 . Underfull \hbox (badness 2932) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 https : / / www . math . sci . hiros hima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [465] Underfull \hbox (badness 1533) in paragraph at lines 32550--32553 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [466] [467] [468] Overfull \hbox (42.78088pt too wide) in paragraph at lines 32704--32704 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] Underfull \hbox (badness 1038) in paragraph at lines 32722--32733 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [469] [470] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32873--32873 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide ntical(X, X.))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 32875--32875 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument of deparse()[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 32876--32876 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "list")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32877--32877 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32878--32878 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32885--32885 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [471] [472] [473] [474] [475] Overfull \hbox (25.98041pt too wide) in paragraph at lines 33195--33195 []\T1/pcr/m/n/9 ## Bit representation [ sign | exponent | mantissa ] of doubl e prec numbers :[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 33197--33197 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) { # split one double[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33207--33207 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits (numToInts(x)), raw(64L))[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33208--33208 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] Underfull \vbox (badness 10000) has occurred while \output is active [476] [477] Underfull \hbox (badness 4048) in paragraph at lines 33302--33307 []\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor to Underfull \hbox (badness 4582) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the mode: Underfull \hbox (badness 1824) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/ 10 , [478] [479] [480] [481] [482] [483] [484] [485] Underfull \hbox (badness 2080) in paragraph at lines 33844--33854 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n /10 (ver-sion num-ber, cur-rently 2 or 3), Overfull \hbox (4.38043pt too wide) in paragraph at lines 33881--33881 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 7558) in paragraph at lines 34406--34410 []\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1968) in paragraph at lines 34416--34418 []\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P OSIX stan-dard, and the [493] Underfull \hbox (badness 10000) in paragraph at lines 34427--34429 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / Underfull \hbox (badness 1975) in paragraph at lines 34430--34434 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m /n/10 https : / / www . [494] [495] [496] [497] [498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 34807--34807 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [499] Underfull \hbox (badness 10000) in paragraph at lines 34885--34889 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [500] [501] [502] [503] Underfull \hbox (badness 2302) in paragraph at lines 35118--35121 []\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu- ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant Underfull \hbox (badness 1824) in paragraph at lines 35118--35121 \T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/ 10 round(x, dig - [504] [505] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35250--35250 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35253--35253 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35260--35260 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [506] [507] [508] [509] [510] [511] [512] Overfull \hbox (66.78088pt too wide) in paragraph at lines 35709--35709 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [513] [514] [515] [516] [517] [518] Overfull \hbox (12.78088pt too wide) in paragraph at lines 36155--36155 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [519] [520] Underfull \hbox (badness 1158) in paragraph at lines 36259--36264 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [521] [522] Overfull \hbox (15.18042pt too wide) in paragraph at lines 36445--36445 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [523] [524] [525] [526] Underfull \hbox (badness 4752) in paragraph at lines 36707--36710 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/ m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 . Underfull \hbox (badness 5563) in paragraph at lines 36711--36717 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2 , ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment [527] Underfull \hbox (badness 1845) in paragraph at lines 36821--36824 []\T1/ptm/m/n/10 A vec-tor of class []\T1/pcr/m/n/10 "Date"[]\T1/ptm/m/n/10 . T ype []\T1/pcr/m/n/10 "[][]integer[][][]" []\T1/ptm/m/n/10 is of-ten pre-served on pur-pose, sav-ing [528] Overfull \hbox (31.3804pt too wide) in paragraph at lines 36842--36842 []\T1/pcr/m/n/9 ## find all 7th of the month _strictly_ inside two dates, the last being a 7th.[] [529] [530] Overfull \hbox (42.18039pt too wide) in paragraph at lines 37018--37018 []\T1/pcr/m/n/9 try(sequence(3, 1:3, 1[0], recycle = FALSE)) # an Error; defau lt will be "empty":[] [531] [532] [533] [534] [535] Underfull \hbox (badness 6094) in paragraph at lines 37362--37366 []\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use Underfull \hbox (badness 6559) in paragraph at lines 37362--37366 \T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo nd-ing to the row names of the ta-ble re-turned by [536] [537] Underfull \hbox (badness 3826) in paragraph at lines 37453--37464 []\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a p-pli-ca-tion as well as the Underfull \hbox (badness 3492) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules for the C run-time Underfull \hbox (badness 10000) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / cpp / c-[]language / Underfull \hbox (badness 1635) in paragraph at lines 37453--37464 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [538] [539] [540] [541] [542] [543] [544] [545] Overfull \hbox (66.78088pt too wide) in paragraph at lines 38014--38014 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [546] [547] [548] [549] Overfull \hbox (9.78043pt too wide) in paragraph at lines 38309--38309 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select = c(am, mpg))[] [550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 38347--38347 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 38349--38349 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] [551] Underfull \hbox (badness 4954) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/ pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T 1/ptm/m/n/10 , see also Underfull \hbox (badness 5050) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \ T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to [552] Overfull \hbox (20.58041pt too wide) in paragraph at lines 38503--38503 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [553] [554] [555] [556] [557] [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38875--38875 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m /n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38890--38890 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [559] [560] [561] Underfull \hbox (badness 10000) in paragraph at lines 39122--39124 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [562] [563] [564] Overfull \hbox (12.78088pt too wide) in paragraph at lines 39348--39348 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 39349--39349 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [565] [566] [567] Underfull \hbox (badness 2828) in paragraph at lines 39548--39556 []\T1/ptm/m/n/10 Stack over-flow er-rors can be caught and han-dled by ex-it-in g han-dlers es-tab-lished with [568] [569] Overfull \hbox (63.78036pt too wide) in paragraph at lines 39684--39684 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [570] Underfull \hbox (badness 6110) in paragraph at lines 39780--39790 []\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][] []\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or Underfull \hbox (badness 2635) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent Underfull \hbox (badness 1237) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the Underfull \hbox (badness 1231) in paragraph at lines 39780--39790 \T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or Underfull \hbox (badness 1112) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ). Us-ing [571] Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1496) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be Underfull \hbox (badness 1460) in paragraph at lines 39851--39858 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment [572] Overfull \hbox (4.38043pt too wide) in paragraph at lines 39910--39910 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [573] Underfull \hbox (badness 5985) in paragraph at lines 39997--40000 []\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; it can be re-trieved by Underfull \hbox (badness 1460) in paragraph at lines 39997--40000 []\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th e call stack that can be re-trieved by [574] [575] Underfull \hbox (badness 1484) in paragraph at lines 40086--40090 []\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an Overfull \hbox (60.78088pt too wide) in paragraph at lines 40146--40146 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [576] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40172--40172 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593), 2 < 2, (1:10 < 12), "a" < "b") |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40188--40188 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3. 1415))) |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40196--40196 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 {Yes, learn how to use do.c all(substitute, ...) in a powerful manner !!}[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 40198--40198 []\T1/pcr/m/n/9 bdy <- do.call(substitute, list(bdy, list(stopifnot = quote(warnifnot))))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 40199--40199 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop = quote(warning))))[] [577] Underfull \hbox (badness 1436) in paragraph at lines 40263--40267 []\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/ m/n/10 ing of sec-onds when needed. Note [578] [579] [580] [581] [582] [583] Overfull \hbox (8.42813pt too wide) in paragraph at lines 40683--40683 []\T1/pcr/m/n/9 ## time with fractional seconds (setting \TS1/cmtt/m/n/9 `\T1/ pcr/m/n/9 tz = ..\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 for reproducible output)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 40685--40685 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] Underfull \vbox (badness 10000) has occurred while \output is active [584] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40718--40718 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19 78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 7), "%a")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40719--40719 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20 00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] [585] Overfull \hbox (0.78088pt too wide) in paragraph at lines 40831--40831 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [586] [587] [588] [589] [590] Overfull \hbox (6.78088pt too wide) in paragraph at lines 41112--41112 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41156--41156 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [591] [592] [593] [594] [595] [596] [597] Overfull \hbox (52.98038pt too wide) in paragraph at lines 41612--41612 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e verything gets added.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 41615--41615 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [598] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41657--41657 []\T1/pcr/m/n/10 format(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41659--41659 [] \T1/pcr/m/n/10 print(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] [599] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41747--41747 []\T1/pcr/m/n/9 summary(penguins$body_mass) # includes quantile(), mean, and NAs (if any)[] [600] [601] [602] [603] [604] Overfull \hbox (31.3804pt too wide) in paragraph at lines 42087--42087 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [605] [606] [607] [608] Overfull \hbox (20.58041pt too wide) in paragraph at lines 42298--42298 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] Underfull \hbox (badness 2293) in paragraph at lines 42328--42334 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de- Underfull \hbox (badness 1237) in paragraph at lines 42328--42334 \T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta -tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call. Underfull \hbox (badness 4792) in paragraph at lines 42346--42351 []\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple Underfull \hbox (badness 1107) in paragraph at lines 42346--42351 []\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1 /pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 42638--42642 []\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\ T1/ptm/m/n/10 and [613] Underfull \hbox (badness 1584) in paragraph at lines 42653--42656 []\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys .frame []\T1/ptm/m/n/10 and [614] [615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 42792--42792 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [616] Overfull \hbox (19.22812pt too wide) in paragraph at lines 42872--42872 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123)) # \TS1/cmtt /m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used [617] [618] Underfull \hbox (badness 1082) in paragraph at lines 43017--43020 []\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [619] Underfull \hbox (badness 10000) in paragraph at lines 43044--43046 [][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li brary[][][](.) []\T1/ptm/m/n/10 and uses [620] [621] Underfull \hbox (badness 1038) in paragraph at lines 43211--43214 []\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or [622] [623] [624] [625] [626] [627] Underfull \hbox (badness 1442) in paragraph at lines 43595--43599 \T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout = [628] [629] [630] Underfull \hbox (badness 4096) in paragraph at lines 43855--43858 []\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin. table[][][][]\T1/ptm/m/n/10 , [631] Underfull \vbox (badness 10000) has occurred while \output is active [632] Underfull \hbox (badness 7888) in paragraph at lines 43974--43978 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/ m/n/10 length(bin) > [633] [634] [635] [636] Overfull \hbox (63.78036pt too wide) in paragraph at lines 44237--44237 [] \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1" , "2"), c("A", "B")))),[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 44239--44239 [] \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] Overfull \hbox (55.67578pt too wide) in paragraph at lines 44241--44241 [] \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m /n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = NULL), dim=4, dimnames=list(as.character(2:5)))))[] Underfull \hbox (badness 10000) in paragraph at lines 44254--44256 []\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t hat was reg-is-tered ear-lier via [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1655) in paragraph at lines 44945--44952 \T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[] \T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1 /ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 2253) in paragraph at lines 44953--44958 []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se e the ex-am-ples for typ-i-cal cases. It may Underfull \hbox (badness 1655) in paragraph at lines 44953--44958 \T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te ms us-ing [647] Underfull \hbox (badness 4467) in paragraph at lines 45007--45016 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re- turns the time-zone names known to the cur-rently se- Underfull \hbox (badness 3954) in paragraph at lines 45007--45016 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [648] Underfull \hbox (badness 1337) in paragraph at lines 45104--45112 \T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 / usr/local/etc\T1/ptm/m/n/10 ' or Underfull \hbox (badness 10000) in paragraph at lines 45113--45116 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [649] Underfull \hbox (badness 3460) in paragraph at lines 45172--45175 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org / Underfull \hbox (badness 4429) in paragraph at lines 45176--45178 [][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol- Overfull \hbox (31.3804pt too wide) in paragraph at lines 45185--45185 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [650] [651] [652] [653] [654] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45527--45527 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15 g)\n", ncp))),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45529--45529 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [655] [656] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45626--45626 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45628--45628 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [657] [658] [659] Underfull \hbox (badness 6542) in paragraph at lines 45903--45905 []\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/ m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n /10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an d [660] [661] Overfull \hbox (30.78088pt too wide) in paragraph at lines 46025--46025 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [662] Underfull \hbox (badness 1708) in paragraph at lines 46093--46101 []\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 46093--46101 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [663] Underfull \hbox (badness 4859) in paragraph at lines 46133--46138 [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle rs and sup-press-ing the print-ing of er-ror mes-sages; [664] Underfull \hbox (badness 3895) in paragraph at lines 46195--46208 []\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in Underfull \hbox (badness 1303) in paragraph at lines 46195--46208 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "integer"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2452) in paragraph at lines 46195--46208 []\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 , [665] [666] [667] [668] [669] Overfull \hbox (9.78043pt too wide) in paragraph at lines 46551--46551 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [670] [671] [672] Underfull \hbox (badness 1137) in paragraph at lines 46690--46697 []\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") [] \T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor [673] [674] [675] [676] [677] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47072--47072 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local es and fonts[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47081--47081 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [678] Underfull \hbox (badness 1721) in paragraph at lines 47143--47160 [][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 , [679] Overfull \hbox (36.7804pt too wide) in paragraph at lines 47245--47245 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] [680] Underfull \hbox (badness 1803) in paragraph at lines 47308--47311 []\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\ T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 3471) in paragraph at lines 47312--47318 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/ n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and [681] [682] [683] Underfull \hbox (badness 1014) in paragraph at lines 47541--47544 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [684] [685] Overfull \hbox (36.78088pt too wide) in paragraph at lines 47651--47651 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [686] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47729--47729 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 47737--47737 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) # There were 105 warnings ...[] [687] Underfull \hbox (badness 1783) in paragraph at lines 47802--47804 []\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [688] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47832--47832 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w eek, yr}), ... :[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 47844--47844 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler: Date -> Matrix - dropping time info {sec,min,hour, isdst}[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 47847--47847 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] [689] Underfull \hbox (badness 10000) in paragraph at lines 47909--47914 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm /m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 2564) in paragraph at lines 47909--47914 []\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name ly a ma-trix whose rows each [690] Underfull \hbox (badness 2818) in paragraph at lines 48014--48020 []\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec- tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10 which.min(x) []\T1/ptm/m/n/10 and [691] Overfull \hbox (15.18042pt too wide) in paragraph at lines 48049--48049 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [692] Underfull \hbox (badness 1325) in paragraph at lines 48149--48152 []\T1/ptm/m/n/10 Lumley T (2003). ``Stan-dard Non-stan-dard Eval-u-a-tion Rules .'' [][]$\T1/pcr/m/n/10 https : / / developer . [693] [694] [695] [696] [697] [698] Overfull \hbox (36.7804pt too wide) in paragraph at lines 48518--48518 []\T1/pcr/m/n/9 zapsmall(c(x2, Inf), min.d=-Inf) # 0 0 .. 0 Inf -- everything is small wrt Inf[] [699] Underfull \hbox (badness 2846) in paragraph at lines 48582--48586 []\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas Overfull \hbox (4.38043pt too wide) in paragraph at lines 48622--48622 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] [700] Underfull \hbox (badness 3209) in paragraph at lines 48643--48647 []\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [701]) (./compiler-pkg.tex [702] Chapter 2. [703] Underfull \hbox (badness 2884) in paragraph at lines 107--121 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b e used to con-trol com-piler op-er-a-tion. There are cur- Underfull \hbox (badness 10000) in paragraph at lines 107--121 \T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef ined[]\T1/ptm/m/n/10 , and [704] [705] [706]) (./datasets-pkg.tex Chapter 3. [707] Underfull \hbox (badness 1199) in paragraph at lines 55--59 []\T1/ptm/m/n/10 Bartholomew DJ (1987). \T1/ptm/m/it/10 La-tent Vari-able Mod-e ls and Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Grif-fin. ISBN [708] [709] [710] [711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 303--303 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [712] Overfull \hbox (4.38043pt too wide) in paragraph at lines 379--379 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [713] [714] [715] [716] Overfull \hbox (4.38043pt too wide) in paragraph at lines 639--639 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [717] Underfull \hbox (badness 4779) in paragraph at lines 727--730 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [718] [719] Underfull \hbox (badness 4779) in paragraph at lines 872--875 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [720] [721] [722] [723] [724] Underfull \hbox (badness 4779) in paragraph at lines 1194--1197 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [725] [726] [727] [728] [729] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1515--1515 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [730] Underfull \hbox (badness 10000) in paragraph at lines 1603--1606 []\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q uarterly.revenue[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1603--1606 []\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\ T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine d from the above [731] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1702--1702 [] \T1/pcr/m/n/9 xlab = "Hip Angle", ylab = "Knee Angle", main = "\TS1/pcr /m/n/9 '\T1/pcr/m/n/9 gait\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 data : Boy 1")[] [732] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1704--1704 []\T1/pcr/m/n/9 matlines(gait[, -1, 1], gait[, -1, 2], type = "l", lty = 1, co l = adjustcolor("thistle", 1/3))[] [733] [734] Underfull \hbox (badness 4779) in paragraph at lines 1876--1879 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [735] [736] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1981--1981 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil y = binomial())[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1989--1989 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [737] [738] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr om I. virginica"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2118--2118 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r epresentation[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2122--2122 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2123--2123 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [739] [740] [741] [742] Underfull \hbox (badness 4779) in paragraph at lines 2351--2354 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [743] [744] [745] [746] [747] [748] [749] [750] [751] Underfull \hbox (badness 4779) in paragraph at lines 2939--2942 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [752] [753] [754] [755] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3209--3209 []\T1/pcr/m/n/9 summary(penguins_raw) # categorical variables are (still) cha racter vectors[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3221--3221 []\T1/pcr/m/n/9 plot(bill_dep ~ bill_len, data = penguins, pch = sym[sex], col = pal[species])[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3229--3229 []\T1/pcr/m/n/9 m <- glm(sex ~ bill_len + bill_dep + body_mass, data = adelie, family = binomial)[] [756] [757] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3341--3341 [] \T1/pcr/m/n/9 replace(names(precip.2), names(precip.2) == "Cincinnati", "Cincinati"))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3345--3345 [] \T1/pcr/m/n/9 setequal(match(c("Bismarck", "Cincinnati", "Pittsburgh"), names(precip)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3347--3347 [] \T1/pcr/m/n/9 identical(names(precip)[-c(45, 46, 52)], names(precip.O)[- c(45, 46, 52)])[] [758] [759] [760] [761] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3575--3575 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [762] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3622--3622 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x ","y","z")))[] [763] [764] [765] [766] [767] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3937--3937 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c ompact map drawing):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3939--3939 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo rdinates for AK & HI:[] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3940--3940 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] Underfull \hbox (badness 1259) in paragraph at lines 3997--4000 \T1/ptm/m/n/10 Av. Cir-cu-laire, 3, B-1180 BRUS-SELS Cur-rently at [][]$\T1/pcr /m/n/10 https : / / www . sidc . be / SILSO / [768] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4049--4049 []\T1/pcr/m/n/9 ## How to recreate the "old" sunspot.month (R <= 3.0.3) =: sun spot.month.0[] [769] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4106--4106 []\T1/pcr/m/n/9 (t2 <- c(min( end(sm)[1],end(sy)[1]), 12)) # Dec 1983 (will n ot be updated!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [770] [771] Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 \T1/pcr/m/n/10 https://oprdata.princeton.edu/archive/pefp/switz.aspx\T1/ptm/m/n /10 . While the Underfull \hbox (badness 4193) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 OPR (Of-fice of Pop-u-la-tion Re-search at Prince-ton Uni-ver-si ty) does not seem to pro- Underfull \hbox (badness 5077) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 vide these any-more, a html-simplified copy of the in-for-ma-tio n page is at [][]$\T1/pcr/m/n/10 https : [772] Underfull \hbox (badness 4779) in paragraph at lines 4265--4268 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [773] [774] [775] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4481--4481 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h ttps : / / web . archive . org / web / Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789]) (./grDevices-pkg.tex [790] Chapter 4. [791] [792] [793] [794] Underfull \hbox (badness 4752) in paragraph at lines 299--304 []\T1/ptm/m/n/10 Apart from that, []\T1/pcr/m/n/10 axisTicks() []\T1/ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/ptm/m/n/10 in Underfull \hbox (badness 2865) in paragraph at lines 299--304 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack -age func-tion [795] Overfull \hbox (9.78043pt too wide) in paragraph at lines 351--351 []\T1/pcr/m/n/9 aX(2, print(ya <- axisTicks(pu[3:4], log = TRUE))) # 10 20 50 100 (y axis)[] [796] [797] [798] Overfull \hbox (6.78088pt too wide) in paragraph at lines 543--543 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 2245) in paragraph at lines 933--938 []\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or [805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 997--997 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]], collapse = ","))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1004--1004 [] \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc ), col = cNms)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1007--1007 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r ed" "yellow"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1014--1014 [] \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e nlarged corners:[] Underfull \vbox (badness 10000) has occurred while \output is active [806] [807] [808] [809] Underfull \hbox (badness 5175) in paragraph at lines 1253--1255 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [810] [811] [812] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1424--1424 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [813] [814] [815] Underfull \hbox (badness 3302) in paragraph at lines 1685--1689 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of Underfull \hbox (badness 10000) in paragraph at lines 1685--1689 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [816] [817] [818] [819] [820] Underfull \hbox (badness 1565) in paragraph at lines 1976--1981 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i s to pro-duce and print a postscript copy. This will not Underfull \hbox (badness 1354) in paragraph at lines 1976--1981 \T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n /10 for how to set this up. Win-dows users may pre-fer to use [821] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2059--2059 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [822] Underfull \hbox (badness 1184) in paragraph at lines 2100--2110 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr /m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 2057) in paragraph at lines 2100--2110 []\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 , [823] Underfull \hbox (badness 10000) in paragraph at lines 2212--2214 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [824] [825] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2349--2349 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [826] Underfull \hbox (badness 6758) in paragraph at lines 2400--2403 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are Underfull \hbox (badness 4927) in paragraph at lines 2404--2407 []\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/ m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see [827] [828] Underfull \hbox (badness 2326) in paragraph at lines 2523--2533 []\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place Underfull \hbox (badness 2318) in paragraph at lines 2523--2533 \T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co m-pat-i-bil-ity with pre-2.12.0 Underfull \hbox (badness 2460) in paragraph at lines 2523--2533 \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e vent han-dlers is to set them us-ing Underfull \hbox (badness 1221) in paragraph at lines 2523--2533 []\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics [829] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2626--2626 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] [830] [831] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2711--2711 []\T1/pcr/m/n/10 glyphFont(file, index, family, weight, style, PSname=NA, vari ations=NULL)[] Underfull \hbox (badness 1320) in paragraph at lines 2759--2762 []\T1/ptm/m/n/10 Axis co-or-di-nate set-tings for vari-able fonts. Ei-ther []\T 1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , or a call to [832] Underfull \hbox (badness 10000) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 glyphFontList()[]\T1/ptm/m/n/10 , one or more []\T1/pcr/m/n/10 glyphFont()[]\T1/ptm/m/n/10 s. For Underfull \hbox (badness 1917) in paragraph at lines 2768--2772 []\T1/pcr/m/n/10 glyphFontVar()[]\T1/ptm/m/n/10 , one or more named nu-meric va l-ues (see De-tails). [833] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE) Overfull \hbox (30.78088pt too wide) in paragraph at lines 2898--2898 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [834] [835] [836] [837] [838] Underfull \hbox (badness 10000) in paragraph at lines 3171--3172 [839] [840] [841] [842] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3500--3500 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [843] [844] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3584--3584 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", scale.in = 255))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3585--3585 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [845] [846] Underfull \hbox (badness 10000) in paragraph at lines 3744--3750 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [847] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3826--3826 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE,[] [848] [849] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3918--3918 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin t old palette[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3938--3938 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu stom matplot()[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3945--3945 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab = "", main=main)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3952--3952 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp ace = "Lab")[] Underfull \vbox (badness 10000) has occurred while \output is active [850] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4003--4003 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) Underfull \hbox (badness 8170) in paragraph at lines 4032--4035 []\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 , [851] Underfull \hbox (badness 2189) in paragraph at lines 4093--4098 []\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work s well for shad-ing points or lines in up to five groups, [852] Underfull \hbox (badness 1721) in paragraph at lines 4137--4140 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2019). ``HCL Color Space --- Wikipe dia, The Free En-cy-clo-pe- [853] [854] Underfull \hbox (badness 1112) in paragraph at lines 4297--4301 []\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r o-pean), []\T1/pcr/m/n/10 "CP1251.enc" [855] [856] Underfull \hbox (badness 1577) in paragraph at lines 4463--4470 \T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded ( or cloned) in all com-mon [857] Underfull \hbox (badness 1688) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a gree over that range. Some en-cod-ings are su-per-sets of Underfull \hbox (badness 2012) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do not come out as you ex- [858] [859] [860] Underfull \hbox (badness 5939) in paragraph at lines 4750--4757 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1448) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 version[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 paper[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 fg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 pagecentre[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 colormodel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 useDingbats[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 useKerning[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fi llOddEven[]\T1/ptm/m/n/10 , [861] [862] [863] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4933 \aliasA{symbol}{plotmath}{symbol} [864] [865] [866] [867] [868] [869] [870] [871] Underfull \hbox (badness 1348) in paragraph at lines 5498--5501 []\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also Overfull \hbox (31.3804pt too wide) in paragraph at lines 5524--5524 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10 24, height = 768)[] [872] Underfull \hbox (badness 4582) in paragraph at lines 5565--5571 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 , give a C in-te-ger for-mat such as [873] [874] [875] Underfull \hbox (badness 7344) in paragraph at lines 5804--5806 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso Underfull \hbox (badness 7397) in paragraph at lines 5816--5820 [][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][] []\T1/ptm/m/n/10 which is called from both [876] [877] Underfull \hbox (badness 1552) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 2221) in paragraph at lines 5954--5956 []\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and Underfull \hbox (badness 4686) in paragraph at lines 5985--5991 []\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for [878] Underfull \hbox (badness 5388) in paragraph at lines 6010--6015 []\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [879] [880] [881] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6222--6222 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [882] [883] Underfull \hbox (badness 10000) in paragraph at lines 6309--6311 []\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][] \T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T 1/ptm/m/n/10 for on-screen de-vices and to [884] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6434--6434 [] \T1/pcr/m/n/9 quartzFonts("mono") # the list(mono = ..) sublist o f quartzFonts()[] [885] [886] [887] Overfull \hbox (1.78088pt too wide) in paragraph at lines 6595--6598 \T1/pcr/m/n/10 2015-[]07-[]recording-[]and-[]replaying-[]the-[]graphics-[]engin e-[]display-[]list/$[][]\T1/ptm/m/n/10 . [888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6685--6685 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15, sep = "."))[] Underfull \hbox (badness 10000) in paragraph at lines 6699--6702 []\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [889] [890] Underfull \vbox (badness 10000) has occurred while \output is active [891] [892] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6919--6919 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 3, ltheta = -75,[] [893] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6930--6930 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left or very right):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 6932--6932 [] \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat = p, continuous = CNT),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6934--6934 []\T1/pcr/m/n/9 doHor(-10, 0, z = -0.5, col = 2) # x in [-10, 0] -- to the v ery left : fine[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6935--6935 []\T1/pcr/m/n/9 doHor(-.5, 2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th e right} --> all fine[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 6936--6936 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 ):[] [894] [895] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7068--7068 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 7075--7075 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [896] [897] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 7342--7347 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1803) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/ ptm/m/n/10 , Underfull \hbox (badness 2941) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fillOddEven []\T1/ptm/m/n/10 and [900] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [901] Underfull \hbox (badness 3590) in paragraph at lines 7489--7492 []\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / / Underfull \hbox (badness 2393) in paragraph at lines 7489--7492 \T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www . Overfull \hbox (12.78088pt too wide) in paragraph at lines 7500--7500 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [902] Underfull \hbox (badness 1189) in paragraph at lines 7565--7567 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [903] Underfull \hbox (badness 10000) in paragraph at lines 7670--7672 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [904] Underfull \hbox (badness 10000) in paragraph at lines 7714--7721 []\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of [] \T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and Underfull \hbox (badness 2469) in paragraph at lines 7714--7721 []\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu x sys-tems which have the Wine [905] Underfull \hbox (badness 5607) in paragraph at lines 7796--7800 []\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and [906] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7848--7848 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [907] [908] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8021--8021 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [909] Underfull \hbox (badness 1231) in paragraph at lines 8060--8062 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of Overfull \hbox (9.78043pt too wide) in paragraph at lines 8087--8087 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats ::rnorm(100))[] [910] [911] [912]) (./graphics-pkg.tex Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 17--19 []\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag es, use []\T1/pcr/m/n/10 library(help = [913] [914] [915] [916] [917] [918] [919] Overfull \hbox (6.05087pt too wide) in paragraph at lines 457--457 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 489--495 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [920] [921] Overfull \hbox (47.58038pt too wide) in paragraph at lines 588--588 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [922] Overfull \hbox (15.18042pt too wide) in paragraph at lines 705--705 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [923] Overfull \hbox (15.18042pt too wide) in paragraph at lines 720--720 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax is = "orange")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 725--725 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3 0")) + 0.25,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 726--726 [] \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m gp = c(3,2,0))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 732--732 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa rd Time (HST)")[] Underfull \hbox (badness 10000) in paragraph at lines 759--763 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr /m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or Underfull \hbox (badness 3250) in paragraph at lines 759--763 [][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T 1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\ T1/ptm/m/n/10 if [924] [925] Overfull \hbox (4.38043pt too wide) in paragraph at lines 846--846 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 884--884 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL,[] [926] [927] Underfull \hbox (badness 2181) in paragraph at lines 984--990 [][][]\T1/pcr/m/n/10 order[][][](height[..], decreasing = )[]\T1/ptm/m/n/10 , where []\T1/pcr/m/n/10 []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TRUE []\T1/pt m/m/n/10 or [928] Underfull \hbox (badness 10000) in paragraph at lines 1054--1058 [][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1 /ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl e. Overfull \hbox (133.98029pt too wide) in paragraph at lines 1071--1071 [] \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1073--1073 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset = Age=="Adult"))[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1075--1075 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] [929] [930] [931] [932] [933] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1373--1373 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [934] [935] [936] Underfull \hbox (badness 3375) in paragraph at lines 1574--1576 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [937] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1652--1652 []\T1/pcr/m/n/9 boxplot(z, col.axis = "skyblue3", main = "boxplot(*, col.axi s=..,main=..)")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1653--1653 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main = "plot(*, col.axi s=..,main=..)")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1659--1659 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill = "grey40",[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1660--1660 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [938] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1693--1693 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [939] [940] [941] [942] Underfull \hbox (badness 10000) in paragraph at lines 1973--1979 [][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr /m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and [943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1993--1993 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho d = "simple",[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2005--2005 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1 :3 *1.5, lty = 1:3)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2021--2021 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2030--2030 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [944] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [945] [946] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2247--2247 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] [947] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2252--2252 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [948] [949] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2426--2426 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse t = 1/8, Overfull \hbox (54.78088pt too wide) in paragraph at lines 2427--2427 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [950] Underfull \hbox (badness 1430) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [951] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2543--2543 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 2545--2545 [] \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke y.border = NULL,[] Underfull \hbox (badness 1009) in paragraph at lines 2555--2562 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [952] [953] Underfull \hbox (badness 7273) in paragraph at lines 2639--2643 [][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p tm/m/n/10 and [954] [955] [956] [957] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2900--2900 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2921--2921 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin g "all" grid lines:[] [958] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2960--2960 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [959] [960] Underfull \hbox (badness 1226) in paragraph at lines 3091--3095 \T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1 /pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy Overfull \hbox (15.18042pt too wide) in paragraph at lines 3147--3147 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3151--3151 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [961] Underfull \hbox (badness 10000) in paragraph at lines 3213--3216 [][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1 /pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as [962] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3264--3264 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [963] [964] [965] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3429--3429 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL SE, pch = 19, ...)[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 3434--3434 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [966] [967] Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f ied, raster im-ages are used when the Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, the grid is reg-u-lar and ei-ther Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is Overfull \hbox (31.3804pt too wide) in paragraph at lines 3611--3611 []\T1/pcr/m/n/9 # Visualize as matrix. Need to transpose matrix and then flip it horizontally:[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3613--3613 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m) -1)/(ncol(m)-1), ...) {[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3616--3616 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [968] [969] [970] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3777--3777 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 0, horiz = TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3796--3796 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3800--3800 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [971] [972] [973] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3989--3989 [] \T1/pcr/m/n/9 text (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c ex = 0.8, adj = 0)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3990--3990 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3994--3994 [] \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l engths & coords[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4004--4004 [] \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] [974] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4035--4035 [] \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj = c(0, 0.3))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4061--4061 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4063--4063 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4074--4074 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4089--4089 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Underfull \vbox (badness 10000) has occurred while \output is active [975] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4097--4097 []\T1/pcr/m/n/9 legend("topleft", "(x,y)", pch=1, title= "topleft, inset = .05", inset = .05)[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4099--4099 []\T1/pcr/m/n/9 legend("topright", "(x,y)", pch=1, title= "topright, inset = .02",inset = .02)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4107--4107 [] \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste ("text.font =",i))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4117--4117 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [976] Underfull \hbox (badness 10000) in paragraph at lines 4180--4184 [][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\ T1/pcr/m/n/10 type %in% [977] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4293--4293 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [978] [979] [980] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4443--4443 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [981] Underfull \hbox (badness 3930) in paragraph at lines 4530--4532 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [982] [983] [984] [985] [986] Underfull \hbox (badness 1286) in paragraph at lines 4844--4847 []\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n /10 oma []\T1/ptm/m/n/10 when chang-ing Underfull \hbox (badness 3229) in paragraph at lines 4852--4857 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [987] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4949--4949 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] [988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4954--4954 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [989] Underfull \hbox (badness 1264) in paragraph at lines 5215--5228 \T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 axis[][][][]\T1/ptm/m/n/10 , [990] [991] [992] [993] Underfull \hbox (badness 10000) in paragraph at lines 5481--5484 [994 ] Underfull \hbox (badness 10000) in paragraph at lines 5542--5544 [995 ] [996] [997] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5796--5796 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, physicians = 9,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5797--5797 [] \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t eachers = 4,[] Underfull \vbox (badness 10000) has occurred while \output is active [998] [999] [1000] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6015--6015 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6, pmat = res), co l = 2, pch = 16)[] [1001] [1002] [1003] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6164--6164 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p yramid" = 5),[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 6165--6165 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [1004] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6231 \aliasA{plot}{plot.default}{plot} Overfull \hbox (78.78088pt too wide) in paragraph at lines 6243--6243 [] \T1/pcr/m/n/10 log = "", lim2 = FALSE, main = NULL, sub = NULL, xlab = NULL, ylab = NULL,[] Underfull \hbox (badness 7981) in paragraph at lines 6276--6281 []\T1/ptm/m/n/10 logical, rel-e-vant only when at least one of []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ylim []\T1/ptm/m/n/10 are Underfull \hbox (badness 10000) in paragraph at lines 6276--6281 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 and hence cor-re-spond-ing axis lim-its are com-puted from Underfull \hbox (badness 4279) in paragraph at lines 6276--6281 [][][]\T1/pcr/m/n/10 range[][][]([])[]\T1/ptm/m/n/10 . When true, \T1/ptm/m/it/10 both \T1/ptm/m/n/10 x- [1005] [1006] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 plot(y ~ x, log="x") # --> Warning: 2 x values <= 0 omitted f rom log..plot[] [1007] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6415--6415 [] \T1/pcr/m/n/9 # nice - reasonable y- axis [0, 0.8][] [1008] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6597--6597 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [1010] [1011] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6721--6721 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 10000) in paragraph at lines 7033--7035 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [1017] Underfull \hbox (badness 1028) in paragraph at lines 7126--7128 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [1018] Overfull \hbox (31.57222pt too wide) in paragraph at lines 7167--7168 [][] [1019 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7262--7262 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7266--7266 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in PDF/HTML help)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7267--7267 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100, units = "in")[] [1020] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7291--7291 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] [1021] Underfull \hbox (badness 10000) in paragraph at lines 7413--7415 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr [1022] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7444--7444 [] \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b order = "red")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [1023] Underfull \hbox (badness 2600) in paragraph at lines 7507--7509 []\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T 1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or [1024] [1025] [1026] [1027] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7743--7743 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [1028] [1029] [1030] [1031] [1032] [1033] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8136--8136 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp ace = "Lab")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8140--8140 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8152--8152 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] [1034] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8179--8179 [] \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights = NULL, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8188--8188 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1035] [1036] [1037] [1038] [1039] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8504--8504 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8507--8507 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8511--8511 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1040] [1041] [1042] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8699--8699 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...) Overfull \hbox (36.78088pt too wide) in paragraph at lines 8700--8700 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1043] [1044] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8804--8804 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1045] Underfull \hbox (badness 1112) in paragraph at lines 8863--8867 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) is drawn. For [1046] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8927--8927 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035 , seg.lwd = .8)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8942--8942 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1047] [1048] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9083--9083 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1049] [1050] [1051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9281--9281 [] \T1/pcr/m/n/9 "Le franais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: Rgles, Libert, Egalit, Fraternit...")[] Underfull \hbox (badness 1215) in paragraph at lines 9309--9311 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m /n/10 par(c("font.sub", [1052] Underfull \hbox (badness 1584) in paragraph at lines 9343--9349 []\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [ ]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} [1053] Underfull \hbox (badness 1205) in paragraph at lines 9457--9459 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1054] [1055] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9578--9578 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 2, length = 0.1)[] [1056]) (./grid-pkg.tex Chapter 6. [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] Underfull \hbox (badness 4859) in paragraph at lines 638--641 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1067] [1068] [1069] [1070] [1071] [1072] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1032--1032 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1073] [1074] [1075] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \T1/pcr/m/n/9 vpList(vpStack(viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1245--1245 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1246--1246 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1247--1247 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1248--1248 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1076] [1077] [1078] [1079] Underfull \hbox (badness 3219) in paragraph at lines 1507--1510 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [1080] [1081] [1082] [1083] [1084] [1085] [1086] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1895--1895 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1087] [1088] [1089] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2109--2109 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla ck"), name="r1")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey" ), name="r2")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1090] Underfull \hbox (badness 2961) in paragraph at lines 2146--2151 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 , [1091] Underfull \hbox (badness 4479) in paragraph at lines 2234--2237 []\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/ n/10 to al-low a grob to per-form cus-tom ac-tions and [1092] [1093] [1094] Underfull \hbox (badness 2894) in paragraph at lines 2441--2448 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [1095] [1096] [1097] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2597--2597 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1098] Underfull \hbox (badness 1014) in paragraph at lines 2683--2688 []\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. Can be [1099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2729--2729 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1100] [1101] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2891--2891 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1102] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2923--2923 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1103] [1104] Underfull \hbox (badness 10000) in paragraph at lines 3106--3108 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1105] Underfull \hbox (badness 1077) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/ ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine Underfull \hbox (badness 1622) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter- Underfull \hbox (badness 2057) in paragraph at lines 3123--3142 []\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "color.dodge"[]\T1/ptm/m/n/10 , [1106] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3195--3195 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1107] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3310--3310 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1108] [1109] [1110] [1111] [1112] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3625--3625 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1113] [1114] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3721--3721 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just= c("left", "bottom")))[] Underfull \hbox (badness 2799) in paragraph at lines 3758--3764 []\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see [1115] [1116] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3850--3850 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3857--3857 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1117] [1118] [1119] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4059--4059 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1120] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4074--4074 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4095--4095 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] Underfull \hbox (badness 1067) in paragraph at lines 4845--4848 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1133] [1134] [1135] [1136] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5061--5061 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1137] [1138] Underfull \hbox (badness 7256) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1139] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5263--5263 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s tats::runif(20, -45,45),[] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \hbox (badness 2726) in paragraph at lines 5652--5656 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list Underfull \hbox (badness 1231) in paragraph at lines 5652--5656 \T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For []\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther [1146] Underfull \hbox (badness 2080) in paragraph at lines 5734--5739 []\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1147] [1148] [1149] Underfull \hbox (badness 10000) in paragraph at lines 5914--5916 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a r-gu-ments above are passed to [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7015--7015 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1167] [1168] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7135--7135 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1169] Underfull \hbox (badness 1867) in paragraph at lines 7237--7239 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or [1170] Underfull \hbox (badness 10000) in paragraph at lines 7274--7280 [][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 , [1171] [1172] [1173] Underfull \vbox (badness 10000) has occurred while \output is active [1174] [1175] [1176] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7610--7610 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1177]) (./methods-pkg.tex [1178] Chapter 7. [1179] [1180] Underfull \hbox (badness 1688) in paragraph at lines 169--174 []\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how co-erce meth-ods work. Use [1181] [1182] [1183] Underfull \hbox (badness 1348) in paragraph at lines 399--402 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1184] [1185] Overfull \hbox (15.18042pt too wide) in paragraph at lines 566--566 []\T1/pcr/m/n/9 ## vector. The next method will always be the default, usuall y a primitive.[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 576--576 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1186] Overfull \hbox (4.38043pt too wide) in paragraph at lines 627--627 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho ut arguments[] Underfull \vbox (badness 10000) has occurred while \output is active [1187] Overfull \hbox (25.98041pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th e default method[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 648--648 []\T1/pcr/m/n/9 ## call f() with 1 argument: the default "B0" is not passed b y callNextMethod[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 665--665 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the "B0" method[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 680--680 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1808--1808 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1810--1810 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 1995--2000 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class [1205] [1206] [1207] Underfull \hbox (badness 1478) in paragraph at lines 2227--2232 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/pcr/m/n/10 where = [1208] [1209] Underfull \hbox (badness 10000) in paragraph at lines 2345--2349 []\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment [][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call Overfull \hbox (78.78088pt too wide) in paragraph at lines 2379--2379 []\T1/pcr/m/n/10 getMethods(f, where, table = FALSE) # deprecated -> use getMe thodsForDispatch()[] [1210] [1211] [1212] Underfull \hbox (badness 3792) in paragraph at lines 2592--2595 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1213] Underfull \hbox (badness 1194) in paragraph at lines 2623--2627 []\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/ n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and Overfull \hbox (24.78088pt too wide) in paragraph at lines 2679--2679 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1214] [1215] [1216] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2903--2903 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 10000) in paragraph at lines 3431--3436 []\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r e-turns the im-plicit generic ver-sion, Underfull \hbox (badness 6268) in paragraph at lines 3431--3436 []\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents [1224] [1225] [1226] Underfull \hbox (badness 10000) in paragraph at lines 3559--3563 []\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class [1227] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3668--3677 [] [1228] [1229] Underfull \hbox (badness 10000) in paragraph at lines 3788--3789 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3835--3836 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1230] Underfull \hbox (badness 10000) in paragraph at lines 3872--3873 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3935--3939 []\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) [] \T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to [1231] [1232] [1233] [1234] [1235] [1236] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4346--4346 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4347--4347 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1237] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4409--4409 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1238] [1239] Underfull \hbox (badness 2126) in paragraph at lines 4555--4563 []\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 , [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 4792--4801 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1243] Underfull \vbox (badness 2452) has occurred while \output is active [1244] [1245] [1246] [1247] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5181--5181 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5209--5209 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Underfull \vbox (badness 10000) has occurred while \output is active [1248] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5223--5223 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] [1249] [1250] [1251] Underfull \hbox (badness 3803) in paragraph at lines 5497--5499 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1252] [1253] [1254] [1255] Underfull \hbox (badness 1087) in paragraph at lines 5731--5736 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 10000) in paragraph at lines 6207--6223 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p tm/m/n/10 is equiv-a-lent to in-vok-ing the method [1261] [1262] Underfull \hbox (badness 1248) in paragraph at lines 6340--6344 []\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T 1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions, Underfull \hbox (badness 1960) in paragraph at lines 6340--6344 \T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to per-form stan-dard ini-tial-iza-tion, as shown in the [1263] [1264] Underfull \hbox (badness 4647) in paragraph at lines 6495--6497 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1265] Underfull \hbox (badness 2875) in paragraph at lines 6644--6653 []\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen se as any S4 class (see Underfull \hbox (badness 1436) in paragraph at lines 6644--6653 [][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of- ten a good idea; they will be called by call-ing [1266] [1267] Underfull \vbox (badness 10000) has occurred while \output is active [1268] [1269] [1270] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6976 \aliasA{S4}{S3Part}{S4} Overfull \hbox (66.78088pt too wide) in paragraph at lines 7012--7012 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1271] [1272] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data = datasets::iris)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7209--7209 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1273] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7234 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7236 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7237 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.matrixOps }) has been already used, duplicate ignored \relax l.7239 ...sA{matrixOps}{S4groupGeneric}{matrixOps} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7240 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7241 \aliasA{Summary}{S4groupGeneric}{Summary} [1274] Underfull \hbox (badness 3907) in paragraph at lines 7297--7302 []\T1/ptm/m/n/10 There are also S3 groups []\T1/pcr/m/n/10 Math[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Ops[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Summary[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 Complex []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 matrixOps[ ]\T1/ptm/m/n/10 , see Underfull \hbox (badness 2050) in paragraph at lines 7303--7307 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing Underfull \hbox (badness 6708) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c os"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3209) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp i"[]\T1/ptm/m/n/10 , [1275] Overfull \hbox (58.38037pt too wide) in paragraph at lines 7395--7395 []\T1/pcr/m/n/9 selectMethod("Re", signature = "testComplex") # shows Generic: .. "Re" & .."Complex"[] [1276] Underfull \hbox (badness 1694) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see [1277] Underfull \hbox (badness 10000) in paragraph at lines 7508--7511 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS uperClasses() []\T1/ptm/m/n/10 which calls Overfull \hbox (20.58041pt too wide) in paragraph at lines 7529--7529 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8649--8649 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1292] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8725--8725 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1293] [1294] [1295] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8988--8988 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1296] [1297] [1298] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9195--9195 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1299] [1300] [1301] [1302] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9458--9458 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1303] [1304] [1305] [1306] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9769--9769 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1307] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9879--9879 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1308] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9890--9890 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] Underfull \hbox (badness 10000) in paragraph at lines 10615--10617 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi on" []\T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 10623--10627 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., Underfull \hbox (badness 1681) in paragraph at lines 10623--10627 []\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1318] [1319] [1320] [1321]) (./parallel-pkg.tex [1322] Chapter 8. Underfull \hbox (badness 2418) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1323] Underfull \hbox (badness 4242) in paragraph at lines 96--98 []\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for [1324] [1325] Underfull \hbox (badness 1024) in paragraph at lines 213--216 []\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1 /ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m /n/10 , and [1326] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1327] [1328] Underfull \hbox (badness 10000) in paragraph at lines 453--455 []\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/ n/10 Rscript []\T1/ptm/m/n/10 such as [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1917) in paragraph at lines 802--811 []\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1 /pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class Underfull \hbox (badness 1178) in paragraph at lines 802--811 []\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If [1334] [1335] Overfull \hbox (60.78088pt too wide) in paragraph at lines 895--895 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1336] [1337] [1338] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1086--1086 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit y.list = affL)[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1090--1090 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1339] Underfull \hbox (badness 5388) in paragraph at lines 1205--1210 []\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [ ]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from [1340] Underfull \hbox (badness 10000) in paragraph at lines 1229--1237 []\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/ ptm/m/n/10 is dif-fer-ent only if Overfull \hbox (9.78043pt too wide) in paragraph at lines 1265--1265 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] [1341] [1342] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1380--1380 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1394--1394 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] [1343] Underfull \hbox (badness 1577) in paragraph at lines 1423--1426 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the Underfull \hbox (badness 3375) in paragraph at lines 1470--1472 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to [1344] [1345]) (./splines-pkg.tex [1346] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (4.38043pt too wide) in paragraph at lines 508--508 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1355] Underfull \hbox (badness 1043) in paragraph at lines 609--611 []\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the [1356] [1357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 723--723 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1358] [1359] [1360]) (./stats-pkg.tex Chapter 10. [1361] Underfull \hbox (badness 1077) in paragraph at lines 71--74 []\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 , Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $ Species" with 3 levels:[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 94--94 [] \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named list, as no factors[] [1362] [1363] [1364] [1365] [1366] Overfull \hbox (20.58041pt too wide) in paragraph at lines 445--445 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea rson Chi-square[] [1367] Overfull \hbox (6.78088pt too wide) in paragraph at lines 468--468 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = FALSE) [1368] [1369] [1370] [1371] [1372] [1373] Underfull \hbox (badness 1024) in paragraph at lines 903--905 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1651--1651 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1654--1654 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1386] [1387] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1798--1798 [] \T1/pcr/m/n/9 if(is.null(xout)) { rx <- range(x, na.rm=TRUE); xout <- seq( rx[1], rx[2], length.out = 25) }[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1804--1804 [] \T1/pcr/m/n/9 approx(x, y, xout=xout, method=M, rule=R, na. rm=na., ...)$y),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1809--1809 [] \T1/pcr/m/n/9 ftable(aperm(ry, 4:1)) # --> (4 * 2 * 2) x length(xout) = 16 x 9 matrix[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1819--1819 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] [1402] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2859--2859 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1403] [1404] [1405] [1406] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3118--3118 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1407] [1408] [1409] Underfull \hbox (badness 10000) in paragraph at lines 3333--3335 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1410] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3382--3382 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1411] [1412] [1413] [1414] [1415] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3741. [1416] Underfull \hbox (badness 4913) in paragraph at lines 3781--3784 []\T1/pcr/m/n/10 rbinom []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 size < .Machine$ integer.max[]\T1/ptm/m/n/10 ) is based on Ka-chitvichyanukul and Overfull \hbox (9.78043pt too wide) in paragraph at lines 3812--3812 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1417] [1418] [1419] [1420] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4090--4090 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1421] [1422] [1423] [1424] [1425] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4383--4383 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4384--4384 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1426] [1427] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4629--4629 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1429] [1430] [1431] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4819--4819 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1432] Underfull \hbox (badness 3989) in paragraph at lines 4916--4923 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1433] [1434] [1435] [1436] Overfull \hbox (66.78088pt too wide) in paragraph at lines 5151--5151 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR T", "Rao"), ...)[] [1437] [1438] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5329--5329 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1)) , ci = c(-1,-1))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5331--5331 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci = c(-0.9,0.1))[] [1439] [1440] [1441] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5553--5553 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] [1442] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5571--5571 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1443] [1444] [1445] Underfull \hbox (badness 1436) in paragraph at lines 5784--5789 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs" []\T1/ptm/m/n/10 , [1446] [1447] Underfull \vbox (badness 10000) has occurred while \output is active [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5986--5986 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1449] [1450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6155--6155 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1451] [1452] [1453] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6340--6340 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1454] [1455] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6452--6452 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] Underfull \hbox (badness 10000) in paragraph at lines 6471--6476 []\T1/ptm/m/n/10 a nu-meric vec-tor in-dex-ing []\T1/pcr/m/n/10 labels(termobj) []\T1/ptm/m/n/10 (that is, the [1456] [1457] [1458] [1459] Underfull \hbox (badness 5954) in paragraph at lines 6721--6723 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1460] Underfull \hbox (badness 2503) in paragraph at lines 6802--6805 []\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 6806--6808 []\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also Underfull \hbox (badness 1655) in paragraph at lines 6809--6814 \T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [ ]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be- fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2, [1461] Underfull \hbox (badness 7238) in paragraph at lines 6845--6848 [][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend rogram[][][] []\T1/ptm/m/n/10 and Overfull \hbox (4.38043pt too wide) in paragraph at lines 6857--6857 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str = "\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 ") # only the first two sub-levels[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6880--6880 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] [1462] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6895--6895 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6910--6910 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1463] [1464] [1465] [1466] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7197--7197 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1 /(2n-2)", las=1)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7202--7202 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] Underfull \vbox (badness 10000) has occurred while \output is active [1467] [1468] [1469] Underfull \vbox (badness 10000) has occurred while \output is active [1470] [1471] [1472] [1473] Underfull \hbox (badness 10000) in paragraph at lines 7602--7606 []\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi nary" []\T1/ptm/m/n/10 or [1474] Underfull \hbox (badness 6493) in paragraph at lines 7704--7707 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from []\T1/ pcr/m/n/10 dist()[]\T1/ptm/m/n/10 , the [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 10000) in paragraph at lines 8263--8268 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences [] \T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 , ..., [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 1107) in paragraph at lines 8597--8600 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 na.action[][][] []\T1/ptm/m/n/10 to b e used if []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is used as a for-mula, in which c ase [1489] [1490] Underfull \hbox (badness 1097) in paragraph at lines 8746--8750 []\T1/ptm/m/n/10 Jreskog KG (1963). \T1/ptm/m/it/10 Sta-tis-ti-cal Es-ti-ma-ti on in Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Almqvist and Wick-sell. Underfull \hbox (badness 10000) in paragraph at lines 8746--8750 [][]$\T1/pcr/m/n/10 https : / / openlibrary . org / books / OL5972263M / Statis tical _ estimation _ [1491] [1492] Underfull \hbox (badness 1325) in paragraph at lines 8898--8910 \T1/ptm/m/n/10 (cor-re-spond-ing to lo-gis-tic, nor-mal and Cauchy CDFs re-spec -tively) []\T1/pcr/m/n/10 log[]\T1/ptm/m/n/10 , [1493] [1494] [1495] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9101--9101 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] Underfull \vbox (badness 10000) has occurred while \output is active [1496] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9146--9146 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link = "log")) # fails[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9149--9149 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1497] [1498] [1499] Underfull \hbox (badness 1810) in paragraph at lines 9382--9388 []\T1/ptm/m/n/10 Singleton RC (1979). ``Mixed Radix Fast Fourier Trans-forms.'' In IEEE Dig-i-tal Sig- Underfull \hbox (badness 2460) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 nal Pro-cess-ing Com-mit-tee (ed.), \T1/ptm/m/it/10 Pro-grams fo r Dig-i-tal Sig-nal Pro-cess-ing\T1/ptm/m/n/10 , chap-ter 1.4.1. Underfull \hbox (badness 1742) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 IEEE Press, New York. ISBN 0-87942-128-2. [][]$\T1/pcr/m/n/10 ht tps : / / archive . org / details / [1500] [1501] [1502] [1503] [1504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9733--9733 [] \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4 0k", "> 40k"),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9734--9734 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1505] [1506] [1507] Underfull \hbox (badness 7291) in paragraph at lines 9915--9917 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1508] [1509] [1510] [1511] Overfull \hbox (54.78088pt too wide) in paragraph at lines 10226--10226 []\T1/pcr/m/n/10 free1way(y, groups, blocks = NULL, event = NULL, weights = NU LL, nbins = 0,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10235--10235 []\T1/pcr/m/n/10 summary(object, test, alternative = c("two.sided", "less", "g reater"),[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 10238--10238 []\T1/pcr/m/n/10 summary(object, test = "Wald", alternative = c("two.sided", " less", "greater"),[] [1512] Underfull \hbox (badness 1253) in paragraph at lines 10318--10323 []\T1/ptm/m/n/10 a char-ac-ter vec-tor defin-ing the global test pro-ce-dure fo r all pa-ram-e-ters: Underfull \hbox (badness 1337) in paragraph at lines 10323--10326 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1513] [1514] [1515] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10497--10497 []\T1/pcr/m/n/9 x$performance <- c(rep(s[c(1, 1)], nvoters[1]), rep(s[c(2, 1)] , nvoters[2]),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10498--10498 [] \T1/pcr/m/n/9 rep(s[c(1, 2)], nvoters[3]), rep(s[c(2, 2)] , nvoters[4]))[] Underfull \vbox (badness 10000) has occurred while \output is active [1516] [1517] [1518] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10687--10687 [] \T1/pcr/m/n/10 row.vars = NULL, col.vars = NULL, perm = c(rev(row.var s), rev(col.vars)))[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10690--10690 [] \T1/pcr/m/n/10 perm = c(rev(seq_len(nrv)), rev(seq_len(ncv) + nrv)) , ...)[] [1519] Underfull \hbox (badness 6944) in paragraph at lines 10767--10773 [][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in- ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment ); [1520] [1521] [1522] Underfull \hbox (badness 3758) in paragraph at lines 10983--10986 []\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or [1523] [1524] [1525] [1526] Overfull \hbox (6.78088pt too wide) in paragraph at lines 11241--11241 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 11267--11272 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1527] Underfull \hbox (badness 4132) in paragraph at lines 11308--11312 []\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth od Underfull \hbox (badness 1112) in paragraph at lines 11362--11368 []\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second []\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak- [1528] Underfull \hbox (badness 10000) in paragraph at lines 11418--11421 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and [1529] [1530] [1531] Underfull \hbox (badness 2142) in paragraph at lines 11638--11641 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1532] [1533] Underfull \hbox (badness 1708) in paragraph at lines 11719--11723 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: Underfull \hbox (badness 10000) in paragraph at lines 11763--11769 [][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1 0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1 0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1534] Underfull \hbox (badness 1418) in paragraph at lines 11801--11806 []\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (= [1535] [1536] Underfull \hbox (badness 2635) in paragraph at lines 11937--11940 \T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\ T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 ) meth-ods and the [1537] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12065--12065 [] \T1/pcr/m/n/9 plot(hcity$D2, hang=-1) # [2,2] as above, [1,2], just y-axis numbers differ[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 12067--12067 []\T1/pcr/m/n/9 mrg <- sapply(hcity, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 [[\TS1/cmt t/m/n/9 `\T1/pcr/m/n/9 , "merge") # defining cluster tree (apart from height)[] [1538] [1539] Underfull \hbox (badness 1694) in paragraph at lines 12152--12155 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1540] Overfull \hbox (25.98041pt too wide) in paragraph at lines 12265--12265 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1541] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12298--12298 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 12311--12315 []\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\ T1/ptm/m/n/10 (the de-fault) or [1542] [1543] [1544] [1545] [1546] [1547] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12643--12643 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12661 \aliasA{hat}{influence.measures}{hat} [1548] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12733--12733 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12745--12745 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] [1549] Underfull \hbox (badness 1062) in paragraph at lines 12800--12805 []\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me nts are there to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 12817--12819 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1550] [1551] [1552] [1553] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13069--13069 []\T1/pcr/m/n/9 integrate(dnorm, 0, 20000) ## "fails" on many systems -- "wron gly" giving \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 0\TS1/pcr/m/n/9 '[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13088--13088 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13089--13089 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 10000) in paragraph at lines 13425--13427 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit = [1559] Underfull \hbox (badness 4739) in paragraph at lines 13448--13450 []\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^ @ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by [1560] [1561] [1562] [1563] Underfull \hbox (badness 3417) in paragraph at lines 13763--13765 []\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/ m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [ ]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <- Underfull \hbox (badness 2894) in paragraph at lines 13769--13773 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method Underfull \hbox (badness 1038) in paragraph at lines 13769--13773 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti ve (or true), trac-ing in-for-ma-tion on the [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14450--14450 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] Underfull \hbox (badness 1281) in paragraph at lines 14512--14516 []\T1/ptm/m/n/10 Johnstone IM, Velle-man PF (1985). ``The Re-sis-tant Line and Re-lated Re-gres-sion Meth- [1575] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14553--14553 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1576] Underfull \hbox (badness 4518) in paragraph at lines 14601--14606 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1577] [1578] [1579] Underfull \hbox (badness 10000) in paragraph at lines 14805--14809 []\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][] []\T1/ptm/m/n/10 , [1580] [1581] [1582] Underfull \hbox (badness 1874) in paragraph at lines 15058--15061 []\T1/ptm/m/n/10 These func-tions call [][][]\T1/pcr/m/n/10 weighted.residuals[ ][][]() []\T1/ptm/m/n/10 so it is as-sumed that the meth-ods for [1583] [1584] Underfull \hbox (badness 1163) in paragraph at lines 15175--15183 \T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re siduals[][][][]\T1/ptm/m/n/10 , [1585] [1586] Underfull \hbox (badness 4518) in paragraph at lines 15297--15302 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1587] [1588] [1589] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15488--15488 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15489--15489 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1590] [1591] [1592] [1593] [1594] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15839--15839 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15840--15840 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1595] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15937--15937 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1596] [1597] [1598] [1599] [1600] [1601] [1602] Underfull \hbox (badness 2726) in paragraph at lines 16348--16351 []\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 , [1603] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16442--16442 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1604] [1605] [1606] [1607] [1608] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16704--16704 [] \T1/pcr/m/n/10 T = Thin.row(Proj(M) - Proj(X)), M = diag(nrow = p), X = ~0,[] [1609] [1610] [1611] [1612] [1613] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17083--17083 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1614] [1615] Underfull \hbox (badness 1490) in paragraph at lines 17236--17241 \T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which are re-cy-cled to the num-ber of data frame rows. Un-like [1616] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17272--17272 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z = log(dist))[] Underfull \hbox (badness 1648) in paragraph at lines 17308--17310 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1617] Overfull \hbox (36.7804pt too wide) in paragraph at lines 17393--17393 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17394--17394 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Overfull \hbox (25.98041pt too wide) in paragraph at lines 18192--18192 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1630] [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Overfull \hbox (58.38037pt too wide) in paragraph at lines 18825--18825 [] \T1/pcr/m/n/9 main = "Residuals vs Hatvalues (nonlinear!)"); abline(h = 0, lty=2, col="gray")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18830--18830 []\T1/pcr/m/n/9 axis(3, at=2*p.n, labels="2 p/n", line = -1/2, padj = 1/2, col =4, col.axis=4)[] [1640] Underfull \vbox (badness 10000) has occurred while \output is active [1641] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18921--18921 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18940--18940 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n umerical differentiation,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 18941--18941 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 18945--18945 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co nverging on *some*):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18946--18946 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal ler than above[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 18949--18949 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Underfull \vbox (badness 10000) has occurred while \output is active [1642] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18981--18981 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1643] [1644] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19159--19159 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1645] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19206--19206 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1646] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19253--19253 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1647] [1648] [1649] Overfull \hbox (102.78088pt too wide) in paragraph at lines 19476--19476 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1650] [1651] [1652] [1653] Underfull \hbox (badness 10000) in paragraph at lines 19761--19767 []\T1/ptm/m/n/10 Method []\T1/pcr/m/n/10 "Brent" []\T1/ptm/m/n/10 is for one-di mensional prob-lems only, us-ing [][][]\T1/pcr/m/n/10 optimize[][][](, [1654] Underfull \hbox (badness 1248) in paragraph at lines 19797--19800 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1661) in paragraph at lines 19810--19814 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 1478) in paragraph at lines 19818--19822 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive . De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/ n/10 and [1655] Underfull \hbox (badness 2042) in paragraph at lines 19876--19878 []\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1 /ptm/m/n/10 method; see com-po-nent [1656] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19982--19982 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1657] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20025--20025 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 20043--20043 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 20046--20046 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1658] Overfull \hbox (36.78088pt too wide) in paragraph at lines 20066--20066 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), Overfull \hbox (36.78088pt too wide) in paragraph at lines 20069--20069 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 20104--20115 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m /n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/ 10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 20104--20115 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately []\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML /cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1659] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20168--20168 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1660] [1661] [1662] [1663] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20419--20419 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 20422--20422 [] \T1/pcr/m/n/9 legend("bottomright", p.adjust.M, col = 1:7, lty = 1:6, bty = "n", inset = 0.05)[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20428--20428 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6, col = 1:7,[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20429--20429 [] \T1/pcr/m/n/9 main = "P-value adjustments [log-log]", log = "xy", xl im=lim, ylim=lim, las=1)[] [1664] [1665] Underfull \hbox (badness 1337) in paragraph at lines 20539--20542 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1666] [1667] [1668] [1669] [1670] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20863--20863 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1671] [1672] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20950--20950 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist vs Leverage* " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 20952--20952 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else panel.raw,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20954--20954 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1673] Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di stance", lty = cook.lty, Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 21027--21033 []\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T 1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in Underfull \hbox (badness 10000) in paragraph at lines 21039--21042 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m /n/10 ylim <- [1674] [1675] [1676] [1677] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21309--21309 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] [1678] [1679] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21443--21443 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 21453--21456 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1680] Underfull \hbox (badness 1107) in paragraph at lines 21511--21513 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate [] \T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to [1681] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21566--21566 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] [1682] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21573--21573 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 1, y.intersp = 1)[] [1683] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21667--21667 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1684] [1685] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21799--21799 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1686] Underfull \hbox (badness 7740) in paragraph at lines 21862--21864 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of [1687] Overfull \hbox (6.78088pt too wide) in paragraph at lines 21910--21910 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1688] Underfull \hbox (badness 10000) in paragraph at lines 21972--21974 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 polym(*, coefs=)[]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 22012--22012 [] \T1/pcr/m/n/9 zm <- zapsmall(polym ( 1:4, c(1, 4:6), degree = 3)) # or just poly():[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22017--22017 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22166--22166 [] \T1/pcr/m/n/10 prob = if (is.null(n)) NULL else rep.int( 1/n, n),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 22168--22168 [] \T1/pcr/m/n/10 blocks = if (is.null(prob)) 1 else NCOL(p rob),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22169--22169 [] \T1/pcr/m/n/10 strata_ratio = 1, delta = NULL, mu = 0, s ig.level = 0.05,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22171--22171 [] \T1/pcr/m/n/10 link = c("logit", "probit", "cloglog", "l oglog"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22172--22172 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "gre ater"), nsim = 100,[] [1692] Underfull \hbox (badness 1337) in paragraph at lines 22206--22209 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1693] [1694] [1695] [1696] [1697] [1698] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22617--22617 [] \T1/pcr/m/n/10 xlab = paste("Cumulative probabilities for", deparse1( substitute(x))),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22618--22618 [] \T1/pcr/m/n/10 ylab = paste("Cumulative probabilities for", deparse1( substitute(y))),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22620--22620 [] \T1/pcr/m/n/10 conf.args = list(link = "logit", type = "Wald", col = NA, border = NULL))[] [1699] [1700] Overfull \hbox (25.98041pt too wide) in paragraph at lines 22721--22721 []\T1/pcr/m/n/9 nd$y <- rnorm(nrow(nd), mean = c(0, .5)[nd$groups], sd = c(1, 1.5)[nd$groups])[] [1701] [1702] [1703] [1704] [1705] Overfull \hbox (58.38037pt too wide) in paragraph at lines 23127--23127 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1706] Underfull \hbox (badness 6859) in paragraph at lines 23195--23202 [][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23206--23212 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1707] [1708] [1709] [1710] [1711] Overfull \hbox (54.78088pt too wide) in paragraph at lines 23501--23501 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string spec-i-fy-ing what should hap-pen in the Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1712] Underfull \hbox (badness 5832) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t he Underfull \hbox (badness 8151) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/ m/n/10 ). In that case, the non- Underfull \hbox (badness 1184) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/ n/10 "non-estim" []\T1/ptm/m/n/10 (see [1713] [1714] [1715] [1716] [1717] [1718] [1719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24000--24000 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1720] [1721] [1722] [1723] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24288--24288 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24289--24289 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1724] [1725] [1726] [1727] [1728] [1729] [1730] Underfull \hbox (badness 1337) in paragraph at lines 24696--24702 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1731] [1732] [1733] [1734] [1735] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25005--25005 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1736] [1737] [1738] [1739] Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 []\T1/ptm/m/n/10 Wicklin R (2017). ``Sam-ple Quan-tiles: A Com-par-i-son of 9 D ef-i-ni-tions.'' Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / Underfull \hbox (badness 10000) in paragraph at lines 25354--25355 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1740] [1741] Overfull \hbox (48.78088pt too wide) in paragraph at lines 25464--25464 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1742] Underfull \hbox (badness 1028) in paragraph at lines 25522--25525 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T 1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and [1743] [1744] Underfull \hbox (badness 10000) in paragraph at lines 25638--25641 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1745] Underfull \hbox (badness 7099) in paragraph at lines 25693--25695 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = [1746] Underfull \hbox (badness 7099) in paragraph at lines 25757--25759 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = Overfull \hbox (31.3804pt too wide) in paragraph at lines 25792--25792 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1747] [1748] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25868--25868 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1749] [1750] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25985--25985 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 25986--25986 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 25987--25987 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25988--25988 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1751] [1752] Underfull \hbox (badness 10000) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[] [][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [ ][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and Underfull \hbox (badness 2495) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing con-tin-gency ta-bles and con-vert-ing them back to Overfull \hbox (15.18042pt too wide) in paragraph at lines 26158--26158 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva r at a minimum[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26159--26159 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 26178--26178 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1753] [1754] Overfull \hbox (60.78088pt too wide) in paragraph at lines 26284--26284 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 26327--26333 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1755] Underfull \hbox (badness 10000) in paragraph at lines 26348--26351 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] = [1756] Overfull \hbox (9.78043pt too wide) in paragraph at lines 26428--26428 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26454--26454 []\T1/pcr/m/n/9 ## An example with initial NAs - used to fail badly (notably f or "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26466--26466 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \vbox (badness 10000) has occurred while \output is active [1763] [1764] Underfull \hbox (badness 6268) in paragraph at lines 26932--26937 [][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 , [1765] [1766] [1767] Underfull \hbox (badness 1867) in paragraph at lines 27140--27142 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 \T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was [1768] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27198--27198 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165 = "Residual standard error" printed fr om summary(lm1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27205--27205 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1769] [1770] [1771] Underfull \hbox (badness 2495) in paragraph at lines 27388--27397 []\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/ m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1 /ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en . [1772] [1773] Overfull \hbox (24.78088pt too wide) in paragraph at lines 27555--27555 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 27562--27564 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1774] [1775] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27648--27648 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 27673--27673 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda = NULL, cv = FALSE, Overfull \hbox (66.78088pt too wide) in paragraph at lines 27676--27676 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1776] [1777] [1778] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27901--27901 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 27905--27911 []\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/ 10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in g only [1779] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27958--27958 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars) & smoothi ng splines")[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 27979--27979 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] [1780] [1781] [1782] Overfull \hbox (0.78088pt too wide) in paragraph at lines 28174--28174 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1783] [1784] [1785] [1786] Underfull \hbox (badness 10000) in paragraph at lines 28446--28454 \T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T 1/pcr/m/n/10 (-frequency(x)/2, [1787] [1788] Overfull \hbox (36.78088pt too wide) in paragraph at lines 28570--28570 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1789] [1790] [1791] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28752--28752 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi * x) + rnorm(30)/10, 3)[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 28758--28758 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28767--28767 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c ol = 3, n = 1001)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28768--28768 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] Underfull \vbox (badness 10000) has occurred while \output is active [1792] Underfull \hbox (badness 2922) in paragraph at lines 28837--28842 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1793] Overfull \hbox (9.78043pt too wide) in paragraph at lines 28874--28874 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim = c(-.3, 5),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 28877--28877 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28886--28886 [] \T1/pcr/m/n/9 c(0 , 1 ), 1, length = 0.08, angle = 25); text(0. 5, 1, quote(1))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28887--28887 [] \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3 # (Asym + R0)/2[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 28891--28891 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] [1794] Underfull \hbox (badness 3240) in paragraph at lines 28945--28948 [][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart [][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff Overfull \hbox (36.7804pt too wide) in paragraph at lines 28966--28966 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log( 0.4), c0 = 3/4)) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28969--28969 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1795] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29052--29052 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log (log(2)))) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29056--29056 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] [1796] Overfull \hbox (58.38037pt too wide) in paragraph at lines 29066--29066 [] \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), phi[1]), pos=0, las=1)[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 29071--29071 [] \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 2922) in paragraph at lines 29107--29113 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1797] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29129--29129 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29145--29145 [] \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 1.5 * exp(-x)"),[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 29159--29159 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af ter increasing maxiter !}[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29161--29161 [] \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, trace=TRUE)[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 29167--29167 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1798] [1799] Overfull \hbox (30.78088pt too wide) in paragraph at lines 29278--29278 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1800] Underfull \hbox (badness 2922) in paragraph at lines 29340--29345 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1801] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29378--29378 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] [1802] Underfull \hbox (badness 2922) in paragraph at lines 29427--29432 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29458--29458 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] [1803] Underfull \hbox (badness 2922) in paragraph at lines 29492--29497 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (25.98041pt too wide) in paragraph at lines 29517--29517 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number of iter...: 0" :[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 29521--29521 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR UE), trace = TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29541--29541 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 29551--29551 [] \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0, 2.5,3.5), # NB. SSlogis(x = xmid = 2) = 2.5[] Underfull \hbox (badness 2922) in paragraph at lines 29586--29591 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1805] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29608--29608 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29626--29626 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1806] Underfull \hbox (badness 6493) in paragraph at lines 29678--29683 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29710--29710 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29712--29712 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29716--29716 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul l() fit to Chick.6")[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29719--29719 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] Underfull \hbox (badness 3396) in paragraph at lines 30616--30618 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/ n/10 , usu-ally, a re-sult of a call to [1821] [1822] [1823] Underfull \hbox (badness 2237) in paragraph at lines 30795--30797 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1824] [1825] Underfull \hbox (badness 2591) in paragraph at lines 30967--30969 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/ n/10 , usu-ally the re-sult of a call to [1826] Underfull \hbox (badness 2237) in paragraph at lines 31013--31016 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1827] Overfull \hbox (48.78088pt too wide) in paragraph at lines 31086--31086 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1828] [1829] Underfull \hbox (badness 3407) in paragraph at lines 31195--31199 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see []\T1/pcr/m/n/10 corr []\T1/ptm/m/n/10 be-low) [1830] Overfull \hbox (47.58038pt too wide) in paragraph at lines 31265--31265 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1831] Underfull \hbox (badness 1337) in paragraph at lines 31328--31332 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1832] [1833] [1834] [1835] Overfull \hbox (9.78043pt too wide) in paragraph at lines 31618--31618 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] [1836] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31662--31662 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1837] Underfull \hbox (badness 1616) in paragraph at lines 31688--31691 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1838] Overfull \hbox (20.58041pt too wide) in paragraph at lines 31767--31767 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] Underfull \hbox (badness 10000) in paragraph at lines 31805--31810 []\T1/ptm/m/n/10 There are meth-ods for classes []\T1/pcr/m/n/10 "aovlist"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "terms"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 " formula" []\T1/ptm/m/n/10 (see [1839] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31845--31845 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1840] [1841] [1842] [1843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32096--32096 []\T1/pcr/m/n/10 toeplitz2(x, nrow = length(x) +1 - ncol, ncol = length(x) +1 - nrow)[] Underfull \hbox (badness 2913) in paragraph at lines 32102--32106 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs t col-umn of the Toeplitz ma-trix; for [1844] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32139--32139 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32152--32152 [] \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette rs[seq_len(n-9)]))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 32163--32163 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" -> longer than y)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 32165--32165 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray", lty=2, add=TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32197--32197 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1845] [1846] Underfull \hbox (badness 1655) in paragraph at lines 32275--32278 []\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1 0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 , Overfull \hbox (20.58041pt too wide) in paragraph at lines 32314--32314 []\T1/pcr/m/n/9 utils:: methods(class = "ts") # all functions with methods ava ilable for "ts"[] [1847] [1848] [1849] [1850] [1851] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32651--32651 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE) Overfull \hbox (12.78088pt too wide) in paragraph at lines 32652--32652 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1852] [1853] [1854] [1855] [1856] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32953--32953 [] \T1/pcr/m/n/10 extendInt = c("no", "yes", "downX", "upX"), check.con v = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32954--32954 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1857] [1858] Overfull \hbox (31.3804pt too wide) in paragraph at lines 33084--33084 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33093--33093 []\T1/pcr/m/n/9 ## where as \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 simply first enlarges the search interval:[] Underfull \vbox (badness 10000) has occurred while \output is active [1859] [1860] [1861] Underfull \hbox (badness 1337) in paragraph at lines 33310--33314 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] Underfull \hbox (badness 1337) in paragraph at lines 33858--33862 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1870] [1871] [1872] Overfull \hbox (74.58035pt too wide) in paragraph at lines 34103--34103 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) # same ties as (4:2, 3:1)[] [1873] [1874] [1875] Overfull \hbox (138.78088pt too wide) in paragraph at lines 34276--34276 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1876] Overfull \hbox (0.78088pt too wide) in paragraph at lines 34362--34362 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, Overfull \hbox (0.78088pt too wide) in paragraph at lines 34364--34364 [] \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F ALSE)[] [1877] [1878] [1879] [1880]) (./stats4-pkg.tex Chapter 11. [1881] [1882] Overfull \hbox (15.18042pt too wide) in paragraph at lines 182--182 []\T1/pcr/m/n/9 nLL <- function(lambda) with(ec50,-sum(stats::dpois(y, lambda, log = TRUE)))[] [1883] Overfull \hbox (25.98041pt too wide) in paragraph at lines 197--197 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf ), log = TRUE)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 205--205 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf), log = TRUE)))[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 225--225 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/e xp(lxhalf)), log = TRUE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Overfull \hbox (4.38043pt too wide) in paragraph at lines 257--257 []\T1/pcr/m/n/9 summary(mle(mll_lm, lower=list(sigma = 0.01))) # alternative s pecification[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 281--281 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] Underfull \vbox (badness 10000) has occurred while \output is active [1885] [1886] [1887] [1888] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.506 ...Package \pkg{stats4}}{show.Rdash.methods} [1889] [1890] [1891]) (./tcltk-pkg.tex [1892] Chapter 12. [1893] [1894] [1895] [1896] [1897] Overfull \hbox (36.7804pt too wide) in paragraph at lines 370--370 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1898] [1899] Underfull \vbox (badness 10000) has occurred while \output is active [1900] [1901] Underfull \hbox (badness 1292) in paragraph at lines 687--694 []\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1902] [1903] [1904] [1905] Underfull \vbox (badness 10000) has occurred while \output is active [1906] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1100--1100 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1907] [1908] [1909] [1910] [1911] Underfull \hbox (badness 1189) in paragraph at lines 1428--1431 [][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/ n/10 (whose [1912]) (./tools-pkg.tex Chapter 13. [1913] Overfull \hbox (9.78043pt too wide) in paragraph at lines 69--69 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for new methods.[] [1914] Underfull \hbox (badness 1253) in paragraph at lines 167--170 []\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1915] Overfull \hbox (4.38043pt too wide) in paragraph at lines 218--218 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch ing warning)[] [1916] Underfull \hbox (badness 5147) in paragraph at lines 326--339 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 Underfull \hbox (badness 4792) in paragraph at lines 326--339 \T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n /10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou- Underfull \hbox (badness 2237) in paragraph at lines 326--339 \T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n /10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10 , [1917] [1918] Overfull \hbox (42.78088pt too wide) in paragraph at lines 410--410 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 429--431 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1919] Underfull \hbox (badness 1142) in paragraph at lines 501--505 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1920] [1921] [1922] [1923] [1924] [1925] [1926] Underfull \hbox (badness 1024) in paragraph at lines 920--927 \T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n /10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o r [1927] Overfull \hbox (0.78088pt too wide) in paragraph at lines 992--992 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1928] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1047--1047 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1929] [1930] [1931] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1298--1298 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1299--1299 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1932] Underfull \hbox (badness 1014) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1352--1354 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1933] Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us- Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 \T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 1397--1400 []\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in- her-it-ing from class [1934] [1935] Underfull \hbox (badness 10000) in paragraph at lines 1544--1547 []\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [ ]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1 /ptm/m/n/10 and [1936] [1937] Underfull \hbox (badness 4647) in paragraph at lines 1726--1731 []\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with char-ac-ter columns con-tain-ing most Underfull \hbox (badness 7869) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu r-rent pack-ages in the CRAN pack-age repos-i- Underfull \hbox (badness 1681) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta iner in-for-ma-tion not pro-vided by [1938] Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 CRAN_current_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_aliases_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_rdx refs_db()[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/pcr/m/n/10 CRAN_authors_db() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 CRAN_a rchive_db() []\T1/ptm/m/n/10 (also used by []\T1/pcr/m/n/10 R CMD check[]\T1/pt m/m/n/10 ) Underfull \hbox (badness 4120) in paragraph at lines 1803--1813 \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R_CRAN_SRC []\T1/ptm/m/n/10 rather than []\ T1/pcr/m/n/10 R_CRAN_WEB[]\T1/ptm/m/n/10 . The mir-ror to be used is re-ported by [1939] [1940] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1927--1927 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1934--1942 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 1934--1942 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1934--1942 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, [1941] [1942] [1943] [1944] [1945] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.2189 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.2190 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1946] [1947] [1948] [1949] [1950] Underfull \hbox (badness 1142) in paragraph at lines 2531--2537 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the pack-age [1951] Underfull \hbox (badness 2359) in paragraph at lines 2596--2603 []\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user and site spe-cific com-pi-la- Underfull \hbox (badness 1102) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1 0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com- Underfull \hbox (badness 4168) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/ m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m /n/10 with [1952] Underfull \hbox (badness 1342) in paragraph at lines 2647--2653 \T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in Underfull \hbox (badness 10000) in paragraph at lines 2672--2679 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. The [1953] Underfull \hbox (badness 1259) in paragraph at lines 2736--2739 []\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/ ptm/m/n/10 searches for strings match-ing the pat-tern of Underfull \hbox (badness 1648) in paragraph at lines 2740--2746 []\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran s-formed more than once. The first Underfull \hbox (badness 1708) in paragraph at lines 2740--2746 \T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 . [1954] [1955] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2884--2884 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2899--2907 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 2899--2907 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2899--2907 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, Overfull \hbox (15.18042pt too wide) in paragraph at lines 2935--2935 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster" , "codetools")[] [1956] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2968--2968 [] \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations = TRUE)[] [1957] [1958] [1959] [1960] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3272--3272 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system .Rd"),[] [1961] Underfull \hbox (badness 2486) in paragraph at lines 3317--3325 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d efined macros may be given in a sep-a-rate file us-ing [1962] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3373--3373 [] \T1/pcr/m/n/10 stylesheet = file.path(R.home("doc"), "html", "R-nav .css"),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3374--3374 [] \T1/pcr/m/n/10 hooks = list(pkg_href = function(pkg) sprintf("%s.ht ml", pkg)),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 mathjax_config = file.path(R.home("doc"), "html", "m athjax-config.js"),[] [1963] [1964] [1965] [1966] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3644--3644 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = NULL) Overfull \hbox (0.78088pt too wide) in paragraph at lines 3648--3648 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = NULL)[] [1967] [1968] [1969] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 fragment = FALSE, ..., writeEncoding = outputEncodin g != "UTF-8",[] [1970] Underfull \hbox (badness 1072) in paragraph at lines 3933--3935 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec- tor of links, as re-turned by [1971] [1972] Underfull \hbox (badness 7667) in paragraph at lines 4104--4105 []\T1/ptm/m/n/10 The sym-bol to use as a bul-let in [1973] [1974] [1975] Overfull \hbox (72.78088pt too wide) in paragraph at lines 4276--4276 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 4314--4325 []\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 , [1976] [1977] [1978] [1979] [1980] Underfull \hbox (badness 4108) in paragraph at lines 4586--4595 []\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o n the loop-back in-ter-face [1981] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4689--4689 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] [1982] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4692--4692 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net", "all"),[] Underfull \hbox (badness 10000) in paragraph at lines 4717--4719 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1983] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4776--4776 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = "Priority"))[] [1984] Underfull \hbox (badness 4954) in paragraph at lines 4841--4846 []\T1/ptm/m/n/10 On Unix-alikes, the de-fault op-tion for []\T1/pcr/m/n/10 texi 2dvi []\T1/ptm/m/n/10 is set from en-vi-ron-ment vari-able [1985] [1986] [1987] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5043--5043 []\T1/pcr/m/n/9 toTitleCase("ensemble tool for predictions from species distri bution models")[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 5047--5047 []\T1/pcr/m/n/9 toTitleCase("a small fox is jumping") # "a Small Fox is .." (the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 a\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 may cha nge)% i.e. BUG[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5051--5051 []\T1/pcr/m/n/9 toTitleCase("asking -- \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 is a smal l fox jumping?\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ") # ".. -- Is a Small ..." (fi ne)[] [1988] [1989] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5134--5134 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1990] [1991] Underfull \hbox (badness 10000) in paragraph at lines 5318--5321 []\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig ht[]\T1/ptm/m/n/10 ' and [1992] Underfull \hbox (badness 6859) in paragraph at lines 5334--5339 []\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/ ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\ T1/ptm/m/n/10 ' are up-dated from Underfull \hbox (badness 1184) in paragraph at lines 5342--5348 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po /\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T he Underfull \hbox (badness 2941) in paragraph at lines 5342--5348 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t he pack-age are ex-am-ined to cre-ate a file [1993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5451--5451 []\T1/pcr/m/n/9 parse_URI_reference(c("foo://example.com:8042/over/there?name= ferret#nose",[] [1994] [1995] [1996] Underfull \hbox (badness 10000) in paragraph at lines 5647--5649 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 , such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or [1997] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5675--5675 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5676--5676 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = grepl("binary", type),[] Underfull \hbox (badness 3240) in paragraph at lines 5689--5692 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ', Underfull \hbox (badness 1742) in paragraph at lines 5693--5703 []\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 , [1998] Underfull \hbox (badness 1127) in paragraph at lines 5740--5746 []\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo r R pack-ages, ex-tracts in-for-ma-tion from Underfull \hbox (badness 1635) in paragraph at lines 5740--5746 \T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file , and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1 0 ', Underfull \hbox (badness 1571) in paragraph at lines 5768--5772 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by Underfull \hbox (badness 2772) in paragraph at lines 5794--5799 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][ ]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat -ing ex-ist-ing [1999] [2000] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5929--5929 [] \T1/pcr/m/n/9 " stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n /9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] [2001] [2002]) (./utils-pkg.tex Chapter 14. Underfull \hbox (badness 1072) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [2003] [2004] [2005] [2006] Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min imize", Underfull \hbox (badness 10000) in paragraph at lines 384--386 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow han-dles, by de-fault pro-duced by [2009] Overfull \hbox (9.78043pt too wide) in paragraph at lines 450--450 []\T1/pcr/m/n/9 # This default is useful only in SDI mode: it will tile any F irefox window[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [2010] [2011] [2012] Overfull \hbox (6.78088pt too wide) in paragraph at lines 690--690 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 691--691 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [2013] Underfull \hbox (badness 10000) in paragraph at lines 727--733 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 4416) in paragraph at lines 727--733 []\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a spell_package_C_files []\T1/ptm/m/n/10 per-form spell check- [2014] Overfull \hbox (6.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 fields = getOption("available_packages_fie lds"),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 801--801 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 841--844 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' [2015] Underfull \hbox (badness 1552) in paragraph at lines 935--941 []\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the pack-age names and col- [2016] Overfull \hbox (31.3804pt too wide) in paragraph at lines 961--961 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter s = "duplicates")[] [2017] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [2018] [2019] Underfull \hbox (badness 7649) in paragraph at lines 1137--1143 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co de should be given ad-di-tion-ally; Underfull \hbox (badness 5533) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[ ]\T1/ptm/m/n/10 . The de-fault for Underfull \hbox (badness 4739) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on the num-ber of (bib) en-tries and Underfull \hbox (badness 1215) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1146--1148 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2020] Underfull \hbox (badness 10000) in paragraph at lines 1264--1267 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [2021] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1346--1346 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2022] [2023] [2024] [2025] [2026] [2027] [2028] Underfull \hbox (badness 3919) in paragraph at lines 1755--1758 []\T1/ptm/m/n/10 the re-cip-i-ent's email ad-dress, which is by de-fault in-fer red from the [2029] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1855--1855 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] [2030] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1887--1887 [] \T1/pcr/m/n/10 md5sum = FALSE, digest = NULL, full.names = length(path) > 1,[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1890--1890 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [2031] [2032] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2036--2036 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [2033] Underfull \hbox (badness 2277) in paragraph at lines 2105--2110 []\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes Overfull \hbox (36.7804pt too wide) in paragraph at lines 2137--2137 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", "upper", "xdigit")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2139--2139 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul tiple = TRUE))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2147--2147 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [2034] [2035] [2036] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2295--2295 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [2037] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2347--2347 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [2038] [2039] Underfull \hbox (badness 1117) in paragraph at lines 2473--2480 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/ ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2473--2480 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2040] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [2041] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2667--2667 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2042] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2722--2722 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) [2043] Underfull \hbox (badness 1082) in paragraph at lines 2751--2755 [][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file s; pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2756 ... the Clipboard in MS Windows}{clipboard} [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 2880--2882 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2046] [2047] [2048] Underfull \hbox (badness 10000) in paragraph at lines 3100--3102 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [2049] [2050] [2051] [2052] Underfull \hbox (badness 1762) in paragraph at lines 3392--3395 []\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package = [2053] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3480--3480 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se ts in the rpart package[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3481--3481 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m /n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [2054] Underfull \hbox (badness 2452) in paragraph at lines 3555--3558 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\ T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources [2055] [2056] [2057] [2058] [2059] [2060] [2061] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3993--3993 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [2062] Underfull \hbox (badness 4779) in paragraph at lines 4074--4079 []\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2063] Underfull \hbox (badness 1072) in paragraph at lines 4156--4160 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2064] Underfull \hbox (badness 7238) in paragraph at lines 4217--4222 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1 0 via \T1/ptm/m/n/10 the en-vi-ron- Underfull \hbox (badness 1337) in paragraph at lines 4217--4222 \T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / / curl . se / libcurl / c / Underfull \hbox (badness 1184) in paragraph at lines 4232--4248 \T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron- [2065] [2066] Underfull \hbox (badness 4660) in paragraph at lines 4358--4361 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 10000) in paragraph at lines 4382--4384 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do wnload.file[][][] []\T1/ptm/m/n/10 and [2067] [2068] [2069] Underfull \hbox (badness 1565) in paragraph at lines 4568--4572 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [2070] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4651--4651 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2071] Underfull \hbox (badness 1910) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p le is run and Underfull \hbox (badness 1655) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [ ]\T1/ptm/m/n/10 sets the same state as Underfull \hbox (badness 2846) in paragraph at lines 4686--4693 []\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac k-age's ex-am-ples. This is cur- Underfull \hbox (badness 3460) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau lt", "default", Underfull \hbox (badness 1931) in paragraph at lines 4693--4700 []\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di -cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE) [2072] [2073] [2074] Underfull \hbox (badness 5939) in paragraph at lines 4946--4948 []\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n /10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault [2075] [2076] [2077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5089--5089 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2078] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 1622) in paragraph at lines 5684--5688 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1448) in paragraph at lines 6069--6074 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2092] [2093] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6218--6218 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\ TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/ m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] [2094] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6230--6230 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2095] [2096] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6372--6372 [] \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i s of length 2:[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2097] [2098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2099] [2100] Underfull \hbox (badness 10000) in paragraph at lines 6669--6671 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[] project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also Underfull \hbox (badness 1502) in paragraph at lines 6718--6724 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6718--6724 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2101] [2102] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6839--6839 []\T1/pcr/m/n/9 help.search("linear models") # In case you forgot how to fit linear models[] [2103] Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in- Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 \T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm l\T1/ptm/m/n/10 ', which can be re-made by [2104] Underfull \hbox (badness 2150) in paragraph at lines 6967--6970 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See Underfull \hbox (badness 5175) in paragraph at lines 6983--6986 []\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc h database for sub-se-quent use by [2105] [2106] Underfull \hbox (badness 3118) in paragraph at lines 7105--7107 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2107] [2108] Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends ", "Imports", "LinkingTo", Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports", Underfull \hbox (badness 1270) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2109] Underfull \hbox (badness 1270) in paragraph at lines 7324--7334 \T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If Underfull \hbox (badness 1975) in paragraph at lines 7366--7370 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to []\T1/pcr/m/n/10 R Underfull \hbox (badness 4913) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall. E.g ., []\T1/pcr/m/n/10 c("--html", Underfull \hbox (badness 10000) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 "--no-multiarch", "--no-test-load") []\T1/ptm/m/n/10 or, for ma- cOS, Underfull \hbox (badness 1424) in paragraph at lines 7375--7378 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to Underfull \hbox (badness 10000) in paragraph at lines 7388--7393 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl oad.file[][][][]\T1/ptm/m/n/10 , [2110] Underfull \hbox (badness 2376) in paragraph at lines 7457--7464 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n /10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1087) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt m/m/n/10 al-ways works pro-vided the pack-age con-tains no [2111] Underfull \hbox (badness 1314) in paragraph at lines 7536--7543 []\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from [2112] Underfull \hbox (badness 10000) in paragraph at lines 7620--7625 [][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac kages[][][][]\T1/ptm/m/n/10 , Overfull \hbox (25.98041pt too wide) in paragraph at lines 7642--7642 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2113] Overfull \hbox (48.78088pt too wide) in paragraph at lines 7660--7660 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 7681--7684 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' Underfull \hbox (badness 5133) in paragraph at lines 7685--7689 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1983) in paragraph at lines 7699--7702 []\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [2114] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7746--7746 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7751--7751 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2115] [2116] Underfull \hbox (badness 4132) in paragraph at lines 7877--7879 []\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at [2117] [2118] [2119] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8044--8044 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2120] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8124--8124 []\T1/pcr/m/n/10 make.packages.html(lib.loc = getOption("html_lib.loc", defaul t = .libPaths()), Overfull \hbox (36.78088pt too wide) in paragraph at lines 8125--8125 [] \T1/pcr/m/n/10 temp = FALSE, verbose = TRUE, docdir = R.h ome("doc"))[] [2121] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8190--8190 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2122] Underfull \hbox (badness 10000) in paragraph at lines 8230--8232 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2123] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8323--8323 [] \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa th = FALSE)[] Overfull \hbox (132.78088pt too wide) in paragraph at lines 8325--8325 [] \T1/pcr/m/n/10 all.names = FALSE, dropPa th = FALSE, useEnv = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 8338--8340 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if Underfull \hbox (badness 10000) in paragraph at lines 8356--8358 []\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm /m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2124] [2125] [2126] [2127] Underfull \hbox (badness 1859) in paragraph at lines 8589--8592 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by [2128] [2129] Overfull \hbox (25.98041pt too wide) in paragraph at lines 8719--8719 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^Bug", Category) & gre pl("PR#", Text),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8725--8725 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8733--8733 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2130] Underfull \hbox (badness 1917) in paragraph at lines 8820--8822 []\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/ n/10 , Underfull \hbox (badness 1331) in paragraph at lines 8828--8832 []\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/ m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard = [2131] [2132] [2133] Underfull \hbox (badness 3690) in paragraph at lines 8992--8995 []\T1/ptm/m/n/10 optionally a char-ac-ter string spec-i-fy-ing an [][]En-cod-in g[][][] for the pack-age [2134] Overfull \hbox (66.78088pt too wide) in paragraph at lines 9093--9093 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9094--9094 [] \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/ %d/%y"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9095--9095 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2135] Underfull \hbox (badness 10000) in paragraph at lines 9123--9125 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\ T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut , al-low-ing things like []\T1/pcr/m/n/10 if Underfull \hbox (badness 1259) in paragraph at lines 9145--9150 []\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2136] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9189--9189 [] \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an d "stats" are[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9190--9190 [] \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] [2137] [2138] Underfull \hbox (badness 10000) in paragraph at lines 9316--9321 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade", Underfull \hbox (badness 10000) in paragraph at lines 9323--9326 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("installed", "not [2139] [2140] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9440--9440 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9441--9441 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2141] [2142] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9628--9628 [] \T1/pcr/m/n/9 "S original, "),[] [2143] [2144] [2145] Underfull \hbox (badness 7203) in paragraph at lines 9800--9802 []\T1/ptm/m/n/10 See [][]\T1/ptm/m/sl/10 Writ-ing R Ex-ten-sions[][] \T1/ptm/m/ n/10 and [][]\T1/ptm/m/sl/10 R for Win-dows FAQ[][] \T1/ptm/m/n/10 for more dis -cus-sion of the [2146] [2147] [2148] [2149] Underfull \hbox (badness 2600) in paragraph at lines 10024--10027 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10648--10648 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2158] [2159] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10809--10809 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2160] [2161] [2162] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10989--10989 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 456 98 76 54[] [2163] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11075--11075 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] [2164] Overfull \hbox (72.78088pt too wide) in paragraph at lines 11076--11076 [] \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t ryLogical = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11078--11078 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 11083--11083 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2165] Underfull \hbox (badness 2027) in paragraph at lines 11155--11158 []\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL Underfull \hbox (badness 2435) in paragraph at lines 11178--11182 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1824) in paragraph at lines 11178--11182 []\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/ n/10 ; passed to [2166] [2167] [2168] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11443--11443 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", "HPD"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 11444--11444 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] [2169] Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 \T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG [2170] [2171] [2172] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11685--11685 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2173] [2174] [2175] [2176] Underfull \hbox (badness 2088) in paragraph at lines 11951--11954 \T1/ptm/m/n/10 Ac-cessed 2024-02-22, [][]$\T1/pcr/m/n/10 https : / / en . wikip edia . org / w / index . php ? title = Roman _ [2177] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11968--11968 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:7))) # + NA with a warni ng for the last.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11973--11973 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,4999} :[] [2178] [2179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12127--12127 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12128--12128 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2180] [2181] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12262--12262 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2182] [2183] Underfull \hbox (badness 1917) in paragraph at lines 12394--12397 []\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me nt vari- Underfull \hbox (badness 4328) in paragraph at lines 12394--12397 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 . If this is set, then it takes prece-dence over Overfull \hbox (106.98032pt too wide) in paragraph at lines 12417--12417 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] [2184] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12510--12510 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12511--12511 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12513--12513 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] [2185] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12514--12514 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date: late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 2662) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re -verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or [2186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12582--12582 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] Underfull \hbox (badness 1377) in paragraph at lines 12638--12641 []\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/ m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style [2187] Underfull \hbox (badness 3646) in paragraph at lines 12673--12675 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software / Overfull \hbox (0.78088pt too wide) in paragraph at lines 12714--12714 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE,[] [2188] [2189] [2190] [2191] [2192] Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 RweaveLatexFinish []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 Rweave LatexOptions []\T1/ptm/m/n/10 are func-tions for the []\T1/pcr/m/n/10 setup[]\T 1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 writedoc[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 finish []\T1/ptm/m /n/10 and []\T1/pcr/m/n/10 checkopts []\T1/ptm/m/n/10 el-e-ments of the driver, re-spec-tively. [2193] Underfull \hbox (badness 10000) in paragraph at lines 13063--13067 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i s now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 13096--13102 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a Underfull \hbox (badness 2027) in paragraph at lines 13111--13117 []\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][] []\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m /n/10 out-put in [2194] Underfull \hbox (badness 10000) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 logical ([]\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 ). An al-ter-n a-tive way to set both []\T1/pcr/m/n/10 ignore.on.weave []\T1/ptm/m/n/10 and [2195] Overfull \hbox (6.78088pt too wide) in paragraph at lines 13280--13280 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 13298--13310 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2196] Underfull \hbox (badness 2600) in paragraph at lines 13368--13370 []\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows and [2197] Underfull \hbox (badness 1043) in paragraph at lines 13411--13416 []\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 ' con-fig-ured the map-ping of font num-bers to fonts, and [2198] [2199] [2200] [2201] [2202] Underfull \hbox (badness 10000) in paragraph at lines 13730--13733 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g Underfull \hbox (badness 10000) in paragraph at lines 13733--13736 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2203] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13779--13779 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] Underfull \hbox (badness 2158) in paragraph at lines 13841--13844 []\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated spe-cially: the value is taken from the cur-rent set-ting of [2204] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13894--13894 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2205] [2206] Underfull \hbox (badness 2302) in paragraph at lines 14050--14052 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2207] [2208] Underfull \hbox (badness 3333) in paragraph at lines 14158--14160 []\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file- [2209] [2210] [2211] Overfull \hbox (42.78088pt too wide) in paragraph at lines 14325--14325 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 14358--14361 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 14358--14361 [][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha s only a weak ef-fect, un-less Underfull \hbox (badness 1052) in paragraph at lines 14369--14378 []\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it y rea-sons; [2212] Underfull \hbox (badness 1442) in paragraph at lines 14385--14389 []\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to Overfull \hbox (36.7804pt too wide) in paragraph at lines 14431--14431 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2213] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14458--14458 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo ng" non-ASCII:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14465--14465 []\T1/pcr/m/n/9 ## nchar.max: 1st line needs an increase of 2 in order to se e 1 (in UTF-8!):[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 14467--14467 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2214] [2215] [2216] Underfull \hbox (badness 10000) in paragraph at lines 14632--14634 []\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/ m/n/10 ap-ply only to files pro-duced by [2217] Underfull \hbox (badness 10000) in paragraph at lines 14740--14743 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's []\T1/pcr/m/n/10 se tup []\T1/ptm/m/n/10 func-tion. See Underfull \hbox (badness 1389) in paragraph at lines 14740--14743 [][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/ m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu- [2218] Underfull \hbox (badness 6300) in paragraph at lines 14793--14800 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau lt) then the avail-able syn-tax ob-jects are con-sulted in Underfull \hbox (badness 6252) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt m/m/n/10 com-po-nent matches (as a reg-exp) the file Underfull \hbox (badness 4556) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/ 10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and [2219] [2220] [2221] [2222] Underfull \hbox (badness 2020) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/ n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on some plat-forms), Underfull \hbox (badness 1194) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 -- exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n /10 ' (and sim-i-lar) and on Win-dows Underfull \hbox (badness 1622) in paragraph at lines 15044--15051 []\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able [2223] [2224] Underfull \hbox (badness 5022) in paragraph at lines 15205--15209 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs . Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15859--15859 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2234] Underfull \hbox (badness 4660) in paragraph at lines 15896--15900 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 1694) in paragraph at lines 15910--15914 []\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins talled.packages[][][](lib.loc = Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 \T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][] Underfull \hbox (badness 1052) in paragraph at lines 15922--15924 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 15957--15962 []\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n /10 available.packages(contriburl = Underfull \hbox (badness 1226) in paragraph at lines 15957--15962 \T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type [2235] Underfull \hbox (badness 10000) in paragraph at lines 15978--15983 []\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/ m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 ) with Underfull \hbox (badness 10000) in paragraph at lines 15986--15989 [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa ckages[][][][]\T1/ptm/m/n/10 , [2236] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16062--16062 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2237] [2238] [2239] Underfull \hbox (badness 4832) in paragraph at lines 16263--16266 [][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename \T1/pcr/m/n/10 ", [2240] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16288--16288 []\T1/pcr/m/n/9 ## OK, but warns as this topic is ambiguous: both {grid} and { lattice} have it.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16290--16290 []\T1/pcr/m/n/9 ## (also accelerates vignette retrieval, esp. with many ins talled packages):[] [2241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16347--16347 [] \T1/pcr/m/n/9 lm(weight ~ (Time + I(Time^2)) * Diet, d ata = DAT)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16369--16369 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2242] [2243] Underfull \hbox (badness 1297) in paragraph at lines 16501--16503 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2244] Underfull \hbox (badness 4036) in paragraph at lines 16548--16550 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil l delete a menu and all of its items and sub-menus. [2245] [2246] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16668--16668 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2247] Underfull \hbox (badness 1715) in paragraph at lines 16720--16723 []\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : [] \T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 16765--16767 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. []\T1/pcr/m/n/10 file = [2248] [2249] [2250]) [2251] [2252] (./KernSmooth-pkg.tex Chapter 15. [2253] Overfull \hbox (24.78088pt too wide) in paragraph at lines 124--124 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2254] [2255] [2256] [2257] [2258] Overfull \hbox (18.78088pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2259] [2260] [2261] [2262]) (./MASS-pkg.tex Chapter 16. [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] [2272] [2273] Overfull \hbox (20.58041pt too wide) in paragraph at lines 774--774 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2274] [2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.g lm}) has been already used, duplicate ignored \relax l.1477 ...{confint.glm}{confint-MASS}{confint.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.n ls}) has been already used, duplicate ignored \relax l.1478 ...{confint.nls}{confint-MASS}{confint.nls} [2284] [2285] [2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294] [2295] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2328--2328 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2332--2332 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2296] [2297] [2298] [2299] Underfull \hbox (badness 6559) in paragraph at lines 2616--2619 []\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 and graph-i-cal pa-ram-e-ters. Note that [2300] [2301] [2302] Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo gnormal"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "Poisson"[]\T1/ptm/m/n/10 , [2303] [2304] Underfull \hbox (badness 4686) in paragraph at lines 2962--2964 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2305] [2306] [2307] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3162--3162 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2308] [2309] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3292--3292 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] Underfull \hbox (badness 1845) in paragraph at lines 4091--4093 []\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and [2321] [2322] [2323] [2324] [2325] [2326] [2327] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4585--4585 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2328] [2329] [2330] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2331] [2332] [2333] [2334] [2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343] [2344] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5864--5864 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2345] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") [2346] [2347] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk}) has been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk.1}) h as been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} [2348] [2349] [2350] [2351] [2352] [2353] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6504--6504 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2354] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6592--6592 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2355] [2356] [2357] [2358] [2359] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6979--6979 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2360] Underfull \hbox (badness 3138) in paragraph at lines 7057--7063 []\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c mr/m/n/10 ) = [2361] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7127--7127 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2362] [2363] Underfull \hbox (badness 1389) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than []\T1/pcr/m/n/10 min(p, [2364] [2365] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7366--7366 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2366] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7431--7431 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2367] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm.1}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} [2368] [2369] [2370] [2371] Underfull \hbox (badness 4686) in paragraph at lines 7808--7810 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2372] [2373] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7927--7927 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 7951--7955 []\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m /n/10 NA[]\T1/ptm/m/n/10 s are found. The [2374] [2375] [2376] [2377] [2378] [2379] [2380] [2381] [2382] [2383] [2384] [2385] [2386] [2387] [2388] [2389] [2390] [2391] [2392] [2393] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9331--9331 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2394] Underfull \hbox (badness 2035) in paragraph at lines 9443--9445 []\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\ T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n /10 , Underfull \hbox (badness 1158) in paragraph at lines 9458--9461 []\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/ 10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l arly), [2395] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9540--9540 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub le.eps^0.25) Overfull \hbox (30.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double .eps^0.25,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9545--9545 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2396] [2397] [2398] [2399] [2400] Underfull \hbox (badness 2951) in paragraph at lines 9905--9907 []\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http s : / / lib . stat . cmu . edu / datasets / 1993 . [2401] [2402] [2403] [2404] [2405] [2406] [2407] [2408]) (./Matrix-pkg.tex Chapter 17. Underfull \hbox (badness 10000) in paragraph at lines 35--38 []\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec t to change, and if you Underfull \hbox (badness 10000) in paragraph at lines 35--38 \T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack- age main-tain-ers [2409] Underfull \hbox (badness 1769) in paragraph at lines 89--92 []\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o wn code. Please con-tact us [2410] Underfull \hbox (badness 2229) in paragraph at lines 153--156 []\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm /m/n/10 ob-jects; here, when the first is Underfull \hbox (badness 1147) in paragraph at lines 153--156 \T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor , these ar-gu-ments will be con-cate-nated to a new pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal }) has been already used, duplicate ignored \relax l.182 ...{all.equal}{all.equal-methods}{all.equal} Underfull \hbox (badness 10000) in paragraph at lines 209--212 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[ ][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see [2411] Underfull \hbox (badness 3098) in paragraph at lines 264--266 []\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic func-tion [2412] [2413] Overfull \hbox (15.18042pt too wide) in paragraph at lines 452--452 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2414] Underfull \hbox (badness 5119) in paragraph at lines 492--496 []\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in g from class Underfull \hbox (badness 1668) in paragraph at lines 496--501 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Overfull \hbox (4.38043pt too wide) in paragraph at lines 527--527 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 529--529 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2415] Overfull \hbox (36.7804pt too wide) in paragraph at lines 538--538 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[ c(1:3, 2:3, 3:2)],[] [2416] Overfull \hbox (52.98038pt too wide) in paragraph at lines 654--654 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd iag() -- for the case of *many* (k x k) matrices:[] [2417] Overfull \hbox (96.18033pt too wide) in paragraph at lines 655--655 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(, , ....., ) where each mat_j is a k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 matrix\TS1/pcr/m/n/9 '[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 656--656 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) matrix of class \code{"\linkS4class{dgCMatrix}"}.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 669--669 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri x indexing), but elegant?[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 670--670 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] [2418] Overfull \hbox (9.78043pt too wide) in paragraph at lines 837--837 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2419] Underfull \hbox (badness 1635) in paragraph at lines 919--924 []\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more typ-i-cally ob-tained as the value of Underfull \hbox (badness 10000) in paragraph at lines 929--932 []\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/ n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 932--935 []\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m /n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 935--938 []\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm = [2420] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1008--1008 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2421] Underfull \hbox (badness 10000) in paragraph at lines 1081--1086 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class [2422] Overfull \hbox (3.02814pt too wide) in paragraph at lines 1137--1137 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] [2423] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2}) has been already used, duplicate ignored \relax l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2}) has been already used, duplicate ignored \relax l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods} [2424] Underfull \hbox (badness 10000) in paragraph at lines 1267--1272 []\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/ 10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met h-ods: Underfull \hbox (badness 10000) in paragraph at lines 1322--1329 []\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\ T1/ptm/m/n/10 is based on CHOLMOD's C-level [2425] [2426] Underfull \hbox (badness 5008) in paragraph at lines 1484--1499 []\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/ m/n/10 : be- [2427] Underfull \hbox (badness 10000) in paragraph at lines 1534--1536 []\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/ n/10 : see Underfull \hbox (badness 1917) in paragraph at lines 1542--1546 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1542--1546 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2428] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1592--1592 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1600--1600 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1609--1609 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*% D %*% L1.))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1610--1610 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L %*% L. ))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1620--1620 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross prod(M), not M[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha s been already used, duplicate ignored \relax l.1625 \aliasA{chol}{chol-methods}{chol} [2429] Underfull \hbox (badness 10000) in paragraph at lines 1730--1734 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 1735--1739 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1735--1739 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2430] [2431] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol2inv} ) has been already used, duplicate ignored \relax l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv} [2432] [2433] Underfull \hbox (badness 1931) in paragraph at lines 1990--1995 []\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/ n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where Underfull \hbox (badness 1226) in paragraph at lines 2005--2008 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1 /ptm/m/n/10 , by class Underfull \hbox (badness 3000) in paragraph at lines 2011--2019 []\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T 1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 2028--2032 []\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1 0 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 2032--2035 []\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm /m/n/10 : [2434] Underfull \hbox (badness 10000) in paragraph at lines 2066--2070 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and [2435] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2121--2121 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] [2436] Underfull \hbox (badness 10000) in paragraph at lines 2252--2259 []\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized is []\T1/pcr/m/n/10 A + Imult * Underfull \hbox (badness 1946) in paragraph at lines 2252--2259 \T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di- [2437] Underfull \hbox (badness 10000) in paragraph at lines 2299--2312 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class Underfull \hbox (badness 10000) in paragraph at lines 2315--2319 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 2320--2324 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 2320--2324 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2438] [2439] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2437--2437 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2438--2438 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2439--2439 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = TRUE, super = TRUE )),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2441--2441 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2442--2442 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2443--2443 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super = TRUE )))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2447--2447 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how = "list", ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2440] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2514--2514 [] \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, - 16, -128, -2, -67))[] Underfull \vbox (badness 10000) has occurred while \output is active [2441] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2610--2610 [] \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4), j=c(2:4,1), x = 2, dimnames=dns))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] [2442] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2621--2621 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr ="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2443] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colMeans} ) has been already used, duplicate ignored \relax l.2696 ...asA{colMeans}{colSums-methods}{colMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums}) has been already used, duplicate ignored \relax l.2704 \aliasA{colSums}{colSums-methods}{colSums} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowMeans} ) has been already used, duplicate ignored \relax l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowSums}) has been already used, duplicate ignored \relax l.2719 \aliasA{rowSums}{colSums-methods}{rowSums} Underfull \hbox (badness 2922) in paragraph at lines 2771--2775 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i n-her-it-ing from Underfull \hbox (badness 1728) in paragraph at lines 2771--2775 \T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr om a Underfull \hbox (badness 1237) in paragraph at lines 2782--2785 [][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][ ]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr /m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1 0 , since [2444] [2445] Underfull \hbox (badness 3547) in paragraph at lines 2888--2891 []\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when [2446] [2447] [2448] [2449] [2450] Underfull \hbox (badness 10000) in paragraph at lines 3290--3293 []\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/ n/10 : com- [2451] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3345--3345 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352 [] \T1/pcr/m/n/9 new( "pMatrix", Dim = c(n, n), Dimnames = c(dn[ 1L], list(NULL)),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list( NULL, NULL),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis t(NULL), dn[2L]),[] [2452] Underfull \hbox (badness 7379) in paragraph at lines 3486--3488 []\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU de-com-po-si-tion of a square [2453] [2454] [2455] Underfull \hbox (badness 4846) in paragraph at lines 3707--3711 []\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and [] [][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr /m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other Underfull \hbox (badness 2717) in paragraph at lines 3712--3716 []\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in more than one pos-si-ble [2456] Underfull \hbox (badness 5231) in paragraph at lines 3757--3762 []\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[ ][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2457] Underfull \hbox (badness 10000) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for Underfull \hbox (badness 6792) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/ n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec- [2458] Underfull \hbox (badness 3646) in paragraph at lines 3901--3904 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a [] [][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally Underfull \hbox (badness 6542) in paragraph at lines 3936--3940 []\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr oup meth-ods re-turn a Underfull \hbox (badness 4518) in paragraph at lines 3945--3951 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2459] Underfull \hbox (badness 10000) in paragraph at lines 3952--3956 []\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j ect of S3 class Underfull \hbox (badness 2318) in paragraph at lines 3962--3966 [][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][ ]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and [2460] [2461] [2462] Underfull \hbox (badness 10000) in paragraph at lines 4219--4221 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2463] [2464] Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2465] Underfull \hbox (badness 2469) in paragraph at lines 4474--4477 []\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][] []\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/ ptm/m/n/10 , via [2466] Underfull \hbox (badness 10000) in paragraph at lines 4497--4502 []\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as Underfull \hbox (badness 2020) in paragraph at lines 4497--4502 [][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 for ef-fi-ciency rea-sons only check the di- Underfull \hbox (badness 1748) in paragraph at lines 4503--4512 \T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion Underfull \hbox (badness 1590) in paragraph at lines 4503--4512 \T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][ ][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see []\T1/pcr/m/n/10 selectMethod("coerce", Underfull \hbox (badness 6675) in paragraph at lines 4559--4566 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][] \T1/ptm/m/n/10 . Underfull \hbox (badness 6493) in paragraph at lines 4559--4566 [][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t ors and ma-tri-ces are co-erced to [2467] Underfull \hbox (badness 10000) in paragraph at lines 4574--4582 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi r-tual class Underfull \hbox (badness 1365) in paragraph at lines 4574--4582 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from [][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4597--4600 []\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/ 10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class [2468] Underfull \hbox (badness 10000) in paragraph at lines 4641--4645 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsCMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 2103) in paragraph at lines 4641--4645 []\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1571) in paragraph at lines 4691--4694 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2469] [2470] Underfull \hbox (badness 1221) in paragraph at lines 4834--4837 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class [] \T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse Matrix"[]\T1/ptm/m/n/10 , by classes Underfull \hbox (badness 1400) in paragraph at lines 4844--4847 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2471] Underfull \hbox (badness 10000) in paragraph at lines 4896--4898 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsyMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1365) in paragraph at lines 4932--4935 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2472] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2473] [2474] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim = c(5L, 5L),[] Underfull \hbox (badness 3635) in paragraph at lines 5139--5143 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla ss Underfull \hbox (badness 10000) in paragraph at lines 5148--5151 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 5151--5155 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2475] [2476] [2477] [2478] Underfull \hbox (badness 10000) in paragraph at lines 5399--5401 []\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir -tual class Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418 [] \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T 1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449 [] [] [2479] Underfull \hbox (badness 7064) in paragraph at lines 5477--5494 []\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = Underfull \hbox (badness 3000) in paragraph at lines 5506--5513 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt m/m/n/10 as Underfull \hbox (badness 2735) in paragraph at lines 5522--5529 []\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/ 10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p tm/m/n/10 . Underfull \hbox (badness 1337) in paragraph at lines 5529--5544 []\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1 0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U, Underfull \hbox (badness 2680) in paragraph at lines 5529--5544 \T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t he same per- Underfull \hbox (badness 5374) in paragraph at lines 5529--5544 \T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1 /pcr/m/n/10 perm []\T1/ptm/m/n/10 slots. Underfull \hbox (badness 2073) in paragraph at lines 5544--5549 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/ ptm/m/n/10 . [2480] [2481] [2482] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753 []\T1/pcr/m/n/9 str(utm <- readHB(system.file("external/utm300.rua" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun terx/counterx.htm[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\T1/pcr/m/n/9 str(jgl <- readMM(system.file("external/jgl009.mtx" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/ msc00726.tar.gz")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary dir./folder:[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] [2483] Overfull \hbox (58.38037pt too wide) in paragraph at lines 5781--5781 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = TRUE), crossprod(L, y))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = FALSE), t crossprod(y, L))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up lo = "U")[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo = "U")[] [2485] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5930--5930 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 6000--6002 []\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min ", "max", [2486] Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 [][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 : []\T1/pcr/m/n/10 .solv e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/ ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 []\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix []\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[] \T1/ptm/m/n/10 . [2487] Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 [][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 : [] \T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up- Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 \T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] * Underfull \hbox (badness 2443) in paragraph at lines 6087--6096 \T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the iden-tity ma-trix, [2488] [2489] [2490] [2491] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.image}) h as been already used, duplicate ignored \relax l.6399 \aliasA{image}{image-methods}{image} [2492] [2493] Underfull \hbox (badness 4120) in paragraph at lines 6495--6498 []\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][ ][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # failed for 2 days ..[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6540--6540 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, border.col=NA)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6541--6541 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd =2, border.col=NA)[] Overfull \hbox (144.78027pt too wide) in paragraph at lines 6545--6545 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] [2494] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a nti-aliasing[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6556--6556 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2495] Underfull \hbox (badness 10000) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and oth-ers listed by Underfull \hbox (badness 1286) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma -trix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 6687--6690 []\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 3375) in paragraph at lines 6690--6695 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s up-port-ing []\T1/pcr/m/n/10 indMatrix [2496] Underfull \hbox (badness 4156) in paragraph at lines 6701--6703 []\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and Underfull \hbox (badness 1337) in paragraph at lines 6707--6711 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : Kro-necker prod-uct of Underfull \hbox (badness 1776) in paragraph at lines 6717--6726 []\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1 0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1 /ptm/m/n/10 af-ter Underfull \hbox (badness 1253) in paragraph at lines 6717--6726 \T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and [2497] Underfull \hbox (badness 1509) in paragraph at lines 6810--6812 []\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be a per-mu-ta-tion of Underfull \hbox (badness 10000) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that Underfull \hbox (badness 4441) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/ 10 , i.e., the [2498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6874--6874 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4 )(6 8)(1 10)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h as been already used, duplicate ignored \relax l.6888 \aliasA{anyNA}{is.na-methods}{anyNA} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.finite }) has been already used, duplicate ignored \relax l.6895 ...asA{is.finite}{is.na-methods}{is.finite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.infini te}) has been already used, duplicate ignored \relax l.6903 ...is.infinite}{is.na-methods}{is.infinite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.na}) h as been already used, duplicate ignored \relax l.6911 \aliasA{is.na}{is.na-methods}{is.na} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.nan}) has been already used, duplicate ignored \relax l.6918 \aliasA{is.nan}{is.na-methods}{is.nan} [2499] [2500] [2501] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.isSymmetr ic}) has been already used, duplicate ignored \relax l.7077 ...etric}{isSymmetric-methods}{isSymmetric} Overfull \hbox (138.78088pt too wide) in paragraph at lines 7124--7124 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, tol1 = 8 * tol, ...)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7126--7126 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, ...)[] [2502] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7181--7181 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if not "formally"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7185--7185 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2503] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7268--7268 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7295--7295 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7371--7371 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1) , c(12L, 4L)),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7372--7372 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] [2505] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7379--7379 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), d imnames(Kmd)))[] [2506] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kronecker }) has been already used, duplicate ignored \relax l.7453 ...kronecker}{kronecker-methods}{kronecker} Underfull \hbox (badness 1062) in paragraph at lines 7552--7555 []\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both [2507] Underfull \hbox (badness 6063) in paragraph at lines 7578--7581 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2508 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,ndiMatr ix,Matrix.Rdash.method}) has been already used, duplicate ignored ...shipout:D \box_use:N \l_shipout_box \__shipout_drop_firstpage_... l.7691 C lass \code{"\LinkA{sparseMatrix}{sparseMatrix.Rdash.class}"}, by cla... ] Underfull \hbox (badness 2635) in paragraph at lines 7738--7743 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 7738--7743 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 7746--7749 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2509] Underfull \hbox (badness 10000) in paragraph at lines 7804--7814 []\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T 1/ptm/m/n/10 ) or in com-pressed column-oriented form (class Underfull \hbox (badness 1242) in paragraph at lines 7804--7814 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\ T1/ptm/m/n/10 --in [2510] Underfull \hbox (badness 3179) in paragraph at lines 7886--7889 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2511] Underfull \hbox (badness 10000) in paragraph at lines 7971--7974 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2512] Underfull \hbox (badness 10000) in paragraph at lines 8032--8035 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2513] [2514] [2515] Underfull \hbox (badness 10000) in paragraph at lines 8270--8273 []\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm /m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x , Underfull \hbox (badness 1490) in paragraph at lines 8292--8294 []\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/ m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][ ] []\T1/ptm/m/n/10 and (one case of) [2516] pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rpcent.* .Rpcent.}) has been already used, duplicate ignored \relax l.8313 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.crossprod }) has been already used, duplicate ignored \relax l.8387 ...A{crossprod}{matmult-methods}{crossprod} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.tcrosspro d}) has been already used, duplicate ignored \relax l.8463 ...tcrossprod}{matmult-methods}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 8549--8555 \T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/ pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn [2517] Underfull \hbox (badness 10000) in paragraph at lines 8618--8621 []\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 3557) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr ix mul-ti-pli-ca-tion. Mul-ti- Underfull \hbox (badness 6608) in paragraph at lines 8626--8630 \T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix Underfull \hbox (badness 1552) in paragraph at lines 8636--8637 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2518] [2519] [2520] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.8859 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 8933--8936 []\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a Underfull \hbox (badness 10000) in paragraph at lines 8949--8952 [2521] Underfull \hbox (badness 10000) in paragraph at lines 8958--8960 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2522] [2523] Underfull \hbox (badness 10000) in paragraph at lines 9128--9132 []\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch KaufmanFactorization[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9151--9153 []\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm = Underfull \hbox (badness 10000) in paragraph at lines 9168--9171 []\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with Underfull \hbox (badness 3019) in paragraph at lines 9177--9180 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T 1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and [2524] Underfull \hbox (badness 10000) in paragraph at lines 9181--9183 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization []\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 9196--9199 []\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct -ing ma-trix fac-tors from Underfull \hbox (badness 1062) in paragraph at lines 9225--9228 []\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both Underfull \hbox (badness 6063) in paragraph at lines 9257--9260 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2525] Underfull \hbox (badness 3312) in paragraph at lines 9314--9316 []\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 [] \T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <- [2526] [2527] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9417--9417 [] \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e -15)# seen rel.d.= 1.46e-16[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9457--9457 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] [2528] Underfull \hbox (badness 2635) in paragraph at lines 9510--9515 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 9510--9515 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 9518--9521 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2529] Underfull \hbox (badness 2521) in paragraph at lines 9586--9592 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2530] Underfull \hbox (badness 1867) in paragraph at lines 9699--9701 []\T1/ptm/m/n/10 fast sim- [2531] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.norm}) ha s been already used, duplicate ignored \relax l.9741 \aliasA{norm}{norm-methods}{norm} [2532] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9836--9836 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9837--9837 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9838--9838 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Underfull \hbox (badness 2401) in paragraph at lines 9883--9893 []\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n /10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri x[]\T1/ptm/m/n/10 , [2533] Underfull \hbox (badness 3179) in paragraph at lines 9954--9957 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2534] Underfull \hbox (badness 10000) in paragraph at lines 10034--10037 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2535] Underfull \hbox (badness 10000) in paragraph at lines 10098--10101 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2536] Underfull \hbox (badness 10000) in paragraph at lines 10172--10174 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2537] [2538] [2539] Underfull \hbox (badness 10000) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot h-ers listed by Underfull \hbox (badness 8189) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t rix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 10389--10393 []\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 2460) in paragraph at lines 10397--10403 []\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the in-verse per-mu-ta-tion ma-trix, [2540] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10467--10467 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10470--10470 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m ax.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10472--10472 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10476--10476 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] [2541] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10477--10477 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 10502--10512 []\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of [] \T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should Underfull \hbox (badness 10000) in paragraph at lines 10502--10512 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2542] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}) has been already used, duplicate ignored \relax l.10604 \aliasA{qr}{qr-methods}{qr} [2543] [2544] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10736--10736 [] \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro ssprod(A1, b))))[] [2545] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10752--10752 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10753--10753 [] \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war ning {FIXME} ![] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10796--10796 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2546] Underfull \hbox (badness 2005) in paragraph at lines 10848--10854 []\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 qr[][][](x, tol, Underfull \hbox (badness 10000) in paragraph at lines 10865--10868 []\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 , it cor-re-sponds to [2547] [2548] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10962--10962 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/ n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale free"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10978--10978 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol = 1e-7)) # all 14[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10985--10985 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L))) # war ning+ ~1.5 sec (2013)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10986--10986 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con siderably faster![] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h as been already used, duplicate ignored \relax l.11005 \aliasA{rcond}{rcond-methods}{rcond} [2549] [2550] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11121--11121 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2551] [2552] Underfull \hbox (badness 2150) in paragraph at lines 11287--11295 \T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n /10 is not [2553] [2554] Underfull \hbox (badness 5147) in paragraph at lines 11444--11447 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m /n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt m/m/n/10 , by class [2555] Underfull \hbox (badness 3179) in paragraph at lines 11459--11462 []\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/ 10 : com-putes [2556] [2557] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11623--11623 [] \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler ance = 1e-13)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h as been already used, duplicate ignored \relax l.11633 \aliasA{solve}{solve-methods}{solve} [2558] Overfull \hbox (90.78088pt too wide) in paragraph at lines 11757--11757 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] Underfull \hbox (badness 1147) in paragraph at lines 11769--11775 []\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/ n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy -ing []\T1/pcr/m/n/10 NROW(b) == Underfull \hbox (badness 3460) in paragraph at lines 11819--11824 []\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w here Underfull \hbox (badness 2359) in paragraph at lines 11825--11839 []\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and [2559] Overfull \hbox (52.98038pt too wide) in paragraph at lines 11892--11892 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re ally, a is singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11896--11896 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2560] Underfull \hbox (badness 10000) in paragraph at lines 11919--11922 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (12.78088pt too wide) in paragraph at lines 11936--11936 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11938--11938 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse,[] Underfull \hbox (badness 1648) in paragraph at lines 11947--11949 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, Underfull \hbox (badness 10000) in paragraph at lines 11955--11958 []\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or (co-er-ca-ble to) Underfull \hbox (badness 2591) in paragraph at lines 11955--11958 []\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c on-trasts to be ap-plied to the Underfull \hbox (badness 10000) in paragraph at lines 11966--11970 []\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for Underfull \hbox (badness 2828) in paragraph at lines 11966--11970 []\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1 /pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for [2561] Underfull \hbox (badness 1668) in paragraph at lines 11981--11986 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Underfull \hbox (badness 3291) in paragraph at lines 12008--12013 []\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][ ]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be Underfull \hbox (badness 2073) in paragraph at lines 12008--12013 \T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n /10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of class [2562] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12061--12061 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M) == c(0, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12062--12062 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M) == c(3, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12063--12063 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2563] Underfull \hbox (badness 2961) in paragraph at lines 12125--12128 []\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m /n/10 : com- Overfull \hbox (9.78043pt too wide) in paragraph at lines 12168--12168 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package = "Matrix")),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12179--12179 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2564] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12186--12186 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12189--12189 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \hbox (badness 10000) in paragraph at lines 12214--12216 []\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion via calls such as Overfull \hbox (0.78088pt too wide) in paragraph at lines 12221--12221 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2565] Underfull \hbox (badness 2261) in paragraph at lines 12259--12265 \T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi r-tual classes [2566] Underfull \hbox (badness 10000) in paragraph at lines 12348--12351 []\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][ ](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and Overfull \hbox (4.38043pt too wide) in paragraph at lines 12361--12361 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x)) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12365--12365 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12366--12366 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12371--12371 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims = c(10,20)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12374--12374 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2567] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12397--12397 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted if necessary:[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12398--12398 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 1:6, dimnames = dn)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12424--12424 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep resentations.[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 12427--12427 [] \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack age = "SparseM"))) {[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12429--12429 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] [2568] Underfull \hbox (badness 6842) in paragraph at lines 12519--12522 []\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\ T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods Underfull \hbox (badness 10000) in paragraph at lines 12554--12558 [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences, such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or [2569] [2570] Underfull \hbox (badness 2961) in paragraph at lines 12738--12741 []\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m /n/10 : com- [2571] Underfull \hbox (badness 3229) in paragraph at lines 12816--12820 []\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][] []\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][] \T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 , [2572] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12856--12856 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12864--12864 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12867--12867 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \vbox (badness 10000) has occurred while \output is active [2573] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12886--12886 [] \T1/pcr/m/n/9 ae2(qrc <- qr.coef (qr.A, b), with(e.qr.A, solve(R1 %*% P 2., t(qrQ)) %*% b))[] Underfull \hbox (badness 5036) in paragraph at lines 12921--12923 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a [2574] Underfull \hbox (badness 2970) in paragraph at lines 13044--13050 []\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/ n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac- Underfull \hbox (badness 3679) in paragraph at lines 13044--13050 \T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 " lsparseVector"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13089--13092 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2575] Underfull \hbox (badness 10000) in paragraph at lines 13123--13128 []\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/ m/n/10 logical[][][] []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 13141--13143 [][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*, [2576] Underfull \vbox (badness 10000) has occurred while \output is active [2577] Overfull \hbox (24.78088pt too wide) in paragraph at lines 13237--13237 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do uble(0L)) Underfull \hbox (badness 2310) in paragraph at lines 13264--13270 [][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more usual con-struc-tor of such ma-tri-ces. Then, [2578] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.Rdash. }) has been already used, duplicate ignored \relax l.13316 ...\Rdash{}}{subassign-methods}{[<.Rdash.} Underfull \hbox (badness 6910) in paragraph at lines 13403--13405 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2579] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[}) has b een already used, duplicate ignored \relax l.13450 \aliasA{[}{subscript-methods}{[} [2580] Underfull \hbox (badness 2591) in paragraph at lines 13585--13590 \T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n /10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or [2581] Underfull \hbox (badness 2057) in paragraph at lines 13661--13663 []\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe r-ent ma-trix classes, use e.g., Underfull \hbox (badness 6396) in paragraph at lines 13670--13674 []\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o r [2582] Underfull \hbox (badness 7722) in paragraph at lines 13675--13680 []\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix , in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 , [2583] Underfull \hbox (badness 6641) in paragraph at lines 13752--13755 []\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as () []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h ave meth-ods with Underfull \hbox (badness 5133) in paragraph at lines 13788--13792 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is the vir-tual class of all sparse ma-tri-ces coded in Underfull \hbox (badness 2818) in paragraph at lines 13788--13792 \T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c re-ated from it. See [2584] [2585] Underfull \hbox (badness 1668) in paragraph at lines 13915--13918 [][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes [2586] Underfull \hbox (badness 10000) in paragraph at lines 14026--14032 []\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r e-trieved in 2008 from [2587] [2588] [2589]) (./boot-pkg.tex [2590] Chapter 18. [2591] [2592] [2593] [2594] [2595] [2596] [2597] Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f" , "w"), [2598] Underfull \hbox (badness 1325) in paragraph at lines 570--577 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r e-quired. Pos-si-ble Underfull \hbox (badness 1275) in paragraph at lines 585--590 []\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m ulti-sample prob- [2599] [2600] [2601] Underfull \hbox (badness 1881) in paragraph at lines 826--828 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 6493) in paragraph at lines 853--857 [][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T 1/ptm/m/n/10 , [2602] Overfull \hbox (4.38043pt too wide) in paragraph at lines 887--887 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, data = nuke)[] Underfull \vbox (badness 10000) has occurred while \output is active [2603] [2604] [2605] Underfull \hbox (badness 1496) in paragraph at lines 1084--1093 []\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari- ance of the Underfull \hbox (badness 2005) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i n-ter-vals. If it Underfull \hbox (badness 2343) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/ n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to Underfull \hbox (badness 2150) in paragraph at lines 1105--1111 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa ult value is [2606] [2607] [2608] [2609] Underfull \hbox (badness 1571) in paragraph at lines 1445--1447 []\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis- [2610] [2611] [2612] [2613] [2614] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix( 1,n,2), [2615] [2616] [2617] Underfull \vbox (badness 10000) has occurred while \output is active [2618] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4) + strata(ulcer),[] [2619] Underfull \hbox (badness 6268) in paragraph at lines 2084--2086 []\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch an-ning House. [2620] [2621] [2622] Underfull \hbox (badness 1565) in paragraph at lines 2338--2343 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori g-i-nal data set [2623] Underfull \hbox (badness 4595) in paragraph at lines 2363--2368 \T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat istic []\T1/ptm/m/n/10 is called. Underfull \hbox (badness 1881) in paragraph at lines 2432--2434 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 2057) in paragraph at lines 2440--2441 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][] \T1/ptm/m/n/10 , [2624] [2625] Underfull \hbox (badness 1077) in paragraph at lines 2536--2540 []\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m /n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1 0 is the sam-ple Underfull \hbox (badness 1112) in paragraph at lines 2536--2540 \T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr /m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T 1/ptm/m/n/10 is used. This is mul-ti-plied by [2626] [2627] [2628] [2629] [2630] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25, Overfull \hbox (18.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 EL.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25,[] [2631] [2632] [2633] Underfull \hbox (badness 3861) in paragraph at lines 3105--3108 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack .after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\ T1/ptm/m/n/10 , [2634] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1 :ncol(mat)) [2635] [2636] [2637] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling [2638] [2639] [2640] [2641] [2642] [2643] [2644] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838 [] \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q = NULL)[] [2645] [2646] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 = grav.z0[3])[] [2647] [2648] [2649] [2650] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259 []\T1/pcr/m/n/9 # To draw the jackknife-after-bootstrap plot for the head siz e data as in [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 4362--4364 []\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o f Underfull \hbox (badness 1430) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to [2653] [2654] [2655] [2656] [2657] [2658] [2659] [2660] [2661] Underfull \hbox (badness 3000) in paragraph at lines 4959--4962 []\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put of a call to [2662] [2663] [2664] [2665] Underfull \hbox (badness 2293) in paragraph at lines 5238--5241 []\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the boot-strap Underfull \hbox (badness 1668) in paragraph at lines 5238--5241 \T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl os-est to [2666] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat a = grav1[, 2])[] [2667] [2668] [2669] [2670] [2671] [2672] [2673] [2674] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c ity.sp1$spa[1][] [2675] Underfull \hbox (badness 1127) in paragraph at lines 5988--6006 []\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then [2676] Underfull \hbox (badness 2837) in paragraph at lines 6021--6024 []\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s addle.distn"[]\T1/ptm/m/n/10 . See the help file for [2677] [2678] [2679] [2680] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and Wright (1991). [2681] [2682] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497 []\T1/pcr/m/n/9 # value of the test statistic 1.84. In the book exponential t ilting was used[] [2683] [2684] [2685] Underfull \hbox (badness 1596) in paragraph at lines 6742--6746 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m ent ex-pected by [2686] [2687] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902 [] \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha = c(0.05, 0.95),[] [2688] [2689] [2690] [2691] [2692] [2693] [2694] [2695]) (./class-pkg.tex [2696] Chapter 19. [2697] [2698] [2699] [2700] [2701] [2702] [2703] [2704] [2705] [2706] [2707] [2708] [2709] [2710] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1008--1008 [] \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, length.out = 1e5)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length .out = 1e5)))[] [2711] [2712]) (./cluster-pkg.tex Chapter 20. [2713] [2714] [2715] Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253 [] \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met hod = 0.5)[iC]) ,[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254 [] \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, -.5))[iC]),[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255 [] \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, +.5))[iC]))[] [2716] [2717] [2718] [2719] Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519 [] \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot = axes,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523 [] \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5, ...)[] [2720] [2721] Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638 [] \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c orrect.d = TRUE)[] [2722] [2723] [2724] Underfull \hbox (badness 2941) in paragraph at lines 792--795 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\ T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 cl[,i] <- clara(xclara, nCl, medoids.x = FALSE, rngR = TRUE )$clustering[] [2725] Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo r this seed):[] Underfull \hbox (badness 10000) in paragraph at lines 882--884 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2726] Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2727] Underfull \hbox (badness 4872) in paragraph at lines 992--994 []\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is Underfull \hbox (badness 1342) in paragraph at lines 1006--1010 []\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in 2012, [2728] Underfull \hbox (badness 2503) in paragraph at lines 1092--1096 []\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen eChip. R pack-age ver- [2729] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118 [] \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE. factor = SEf)))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1144--1144 [] \T1/pcr/m/n/9 gskmn <- clusGap(x, FUNcluster = kmeans, nstart = 20, K.max = 8, B = 60)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1146--1146 [] \T1/pcr/m/n/9 plot(gskmn, main = "clusGap(., FUNcluster = kmeans, n.start= 20, B= 60)")[] Underfull \vbox (badness 10000) has occurred while \output is active [2730] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1205--1209 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 com-po-nent, e.g., for [2731] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281 [] \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1, cex.txt = cex,[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2732] [2733] [2734] Underfull \hbox (badness 10000) in paragraph at lines 1474--1477 Underfull \hbox (badness 10000) in paragraph at lines 1488--1492 [][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][ ][]\T1/ptm/m/n/10 , Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a nd label ellipses[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2735] Underfull \hbox (badness 5741) in paragraph at lines 1562--1565 []\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only [2736] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2737] Underfull \hbox (badness 1552) in paragraph at lines 1680--1682 []\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n /10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se e Underfull \hbox (badness 1629) in paragraph at lines 1694--1698 []\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault \T1/ptm/m/n/10 for all nu-meric Underfull \hbox (badness 3746) in paragraph at lines 1694--1698 \T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T 1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see [2738] Underfull \hbox (badness 1540) in paragraph at lines 1769--1777 \T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1 0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 = [2739] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856 []\T1/pcr/m/n/9 ## Example 2 in reference, extended --- different ways of "m ixed" / "gower":[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860 []\T1/pcr/m/n/9 summary(d0 <- daisy(flower)) # -> the first 3 {0,1} treate d as *N*ominal[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower, type = list(symm = 1:3))) # fi rst 3 treated as *S*ymmetric[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e., *S*ymmetric <==> *N*ominal {fo r 2-level factor}[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated * A*symmetric binary (w/ warning)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1875--1875 []\T1/pcr/m/n/9 Nflow[,1:3] <- lapply(flower[,1:3], function(f) as.integer(as. character(f)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1: 3 as interval[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id entical to treating them as "N" :[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2740] [2741] [2742] [2743] [2744] Underfull \hbox (badness 10000) in paragraph at lines 2212--2215 Underfull \hbox (badness 3179) in paragraph at lines 2223--2229 [][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1 0 ellipsoid []\T1/ptm/m/n/10 ob-jects. [2745] [2746] Underfull \hbox (badness 10000) in paragraph at lines 2380--2383 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2747] Underfull \hbox (badness 1292) in paragraph at lines 2448--2451 []\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10 , the num-ber of it-er-a-tions needed and [2748] Underfull \hbox (badness 6675) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl us-ter-ing, see Underfull \hbox (badness 10000) in paragraph at lines 2480--2483 [][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2749] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555 [] \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f lowerN$color)][] Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/9 levels(flowerN$soil) <- c("1" = "dry", "2" = "normal", "3" = "wet")[levels(flowerN$soil)][] [2750] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2751] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2752] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] [2753] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2754] [2755] [2756] [2757] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3078--3078 []\T1/pcr/m/n/9 ## use obs. 1 & 16 as starting medoids -- same result (for see d above, *and* typically) :[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3080--3080 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3083--3083 []\T1/pcr/m/n/9 keep_nms <- setdiff(names(pamx), c("call", "objective"))# .$ob jective["build"] differ[] [2758] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3187--3187 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2759] [2760] [2761] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3382--3382 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2762] Underfull \hbox (badness 10000) in paragraph at lines 3449--3452 []\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m /n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <- [2763] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3499--3499 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3500--3500 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2764] [2765] [2766] Underfull \hbox (badness 10000) in paragraph at lines 3685--3688 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[] [][](*, Underfull \hbox (badness 1448) in paragraph at lines 3685--3688 \T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is [2767] Underfull \hbox (badness 10000) in paragraph at lines 3748--3753 [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [2768] Underfull \hbox (badness 1748) in paragraph at lines 3810--3815 \T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx <- Underfull \hbox (badness 6268) in paragraph at lines 3822--3825 [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1 0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 , [2769] Underfull \hbox (badness 10000) in paragraph at lines 3883--3885 []\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t he archive of the Uni-ver-sity of Antwer-pen, [2770] [2771] Underfull \hbox (badness 10000) in paragraph at lines 4002--4005 [][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2772] Underfull \hbox (badness 10000) in paragraph at lines 4033--4036 [][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2773] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4086--4086 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] Underfull \hbox (badness 2035) in paragraph at lines 4097--4099 []\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for [2774] [2775] [2776] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4290--4290 [] \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w idth "* s[i]),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4292--4292 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2777] [2778] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4434--4434 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus ter-wise coloring[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4443--4443 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4445--4445 [] \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma in")); frame()[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4448--4448 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol denrod4", "gray20")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4450--4450 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] [2779] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4457--4457 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2780] [2781] [2782] [2783] [2784] [2785] Underfull \hbox (badness 10000) in paragraph at lines 4828--4834 []\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i s slightly more rounded than the one from Underfull \hbox (badness 10000) in paragraph at lines 4844--4846 []\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file `\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side Overfull \hbox (52.98038pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10 01:2000}, {2001:3000} Overfull \hbox (9.78043pt too wide) in paragraph at lines 4859--4859 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s medoid indices == pam(xclara, 3)$id.med[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4869--4869 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2786] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4873--4873 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2787]) (./codetools-pkg.tex [2788] Chapter 21. Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16 [] \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17 [] \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = !all,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18 [] \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress Undefined,[] [2789] Underfull \hbox (badness 10000) in paragraph at lines 65--70 []\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f oldable,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e nterInternal,[] [2791] [2792] [2793]) (./foreign-pkg.tex [2794] Chapter 22. Underfull \hbox (badness 10000) in paragraph at lines 33--37 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2795] Underfull \hbox (badness 1231) in paragraph at lines 67--70 []\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr om, or a [2796] [2797] Underfull \hbox (badness 3601) in paragraph at lines 234--242 []\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m /n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/ 10 , [2798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 292--292 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2799] [2800] [2801] Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2802] Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 502--511 []\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif- fer-ent lev- Underfull \hbox (badness 3746) in paragraph at lines 502--511 \T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul t), the first orig-i-nal value la-bel is Underfull \hbox (badness 2269) in paragraph at lines 502--511 \T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p cr/m/n/10 paste0(label, Underfull \hbox (badness 10000) in paragraph at lines 512--515 []\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with du- Underfull \hbox (badness 10000) in paragraph at lines 512--515 \T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup licated_"[]\T1/ptm/m/n/10 ) if [2803] Underfull \hbox (badness 10000) in paragraph at lines 546--554 []\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / windows / win32 / intl / Underfull \hbox (badness 7613) in paragraph at lines 564--570 []\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute [2804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg ument settings.[] Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2805] Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ ate variables[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt h=w), "\n"))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2806] [2807] Underfull \hbox (badness 10000) in paragraph at lines 808--809 Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2808] Underfull \hbox (badness 10000) in paragraph at lines 865--869 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2809] Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2810] Overfull \hbox (0.78088pt too wide) in paragraph at lines 960--960 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2811] [2812] Underfull \hbox (badness 10000) in paragraph at lines 1072--1073 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2813] [2814] Underfull \hbox (badness 10000) in paragraph at lines 1265--1271 []\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig n:::writeForeignStata[]\T1/ptm/m/n/10 , [2815] Underfull \hbox (badness 2088) in paragraph at lines 1291--1294 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET [2816]) (./lattice-pkg.tex Chapter 23. [2817] Underfull \hbox (badness 2073) in paragraph at lines 114--118 \T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [ ][]$\T1/pcr/m/n/10 http : / / web . archive . org / Underfull \hbox (badness 10000) in paragraph at lines 114--118 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2818] [2819] Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2820] Overfull \hbox (42.78088pt too wide) in paragraph at lines 304--304 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 314--314 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 325--325 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 349--349 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2821] Overfull \hbox (30.78088pt too wide) in paragraph at lines 353--353 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2822] [2823] [2824] Underfull \hbox (badness 1221) in paragraph at lines 656--659 []\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as ar-gu-ments to [2825] [2826] [2827] [2828] Underfull \hbox (badness 2005) in paragraph at lines 999--1011 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of fac-tors will be Underfull \hbox (badness 1199) in paragraph at lines 999--1011 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2829] [2830] Underfull \hbox (badness 1661) in paragraph at lines 1112--1118 []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates [2831] Underfull \hbox (badness 1097) in paragraph at lines 1238--1240 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a [2832] Underfull \hbox (badness 1917) in paragraph at lines 1252--1253 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2833] [2834] Underfull \hbox (badness 1540) in paragraph at lines 1487--1493 []\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/ n/10 plot.trellis[][][][]\T1/ptm/m/n/10 , Underfull \vbox (badness 10000) has occurred while \output is active [2835] Underfull \hbox (badness 10000) in paragraph at lines 1574--1591 [][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 , [2836] [2837] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1662--1662 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2838] Underfull \hbox (badness 2012) in paragraph at lines 1716--1718 []\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[] [][][]\T1/ptm/m/n/10 , which may pass them on to Underfull \hbox (badness 6808) in paragraph at lines 1746--1750 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to Underfull \hbox (badness 10000) in paragraph at lines 1763--1766 []\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1 /ptm/m/n/10 , etc; see [2839] Underfull \hbox (badness 10000) in paragraph at lines 1815--1817 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2840] [2841] [2842] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2056--2056 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] [2843] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2069--2069 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2844] Underfull \hbox (badness 10000) in paragraph at lines 2148--2151 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie d, the value of Underfull \hbox (badness 1320) in paragraph at lines 2148--2151 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2845] [2846] [2847] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2353--2353 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2357--2357 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2848] [2849] [2850] [2851] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2713--2713 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2852] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2745--2745 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2853] Underfull \hbox (badness 2913) in paragraph at lines 2824--2829 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 2824--2829 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as [2854] [2855] Underfull \hbox (badness 6758) in paragraph at lines 2952--2956 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be Underfull \hbox (badness 7576) in paragraph at lines 2952--2956 \T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra ster[][][][]\T1/ptm/m/n/10 . See also Underfull \hbox (badness 10000) in paragraph at lines 2958--2960 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 7256) in paragraph at lines 2995--2995 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr oups[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1609) in paragraph at lines 3008--3014 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti ons should be used, Underfull \hbox (badness 2772) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 both for the false color im-age and the color key (if present). Ef- Underfull \hbox (badness 1400) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n /10 changes the de-fault panel func-tion from Underfull \hbox (badness 2486) in paragraph at lines 3032--3036 []\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for the de-fault panel func-tion [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3137--3137 [] \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3138--3138 [] \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3139--3139 [] \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite = TRUE),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3150--3150 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2858] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3165--3165 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] [2859] Underfull \hbox (badness 2913) in paragraph at lines 3230--3235 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 3230--3235 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as Underfull \hbox (badness 2418) in paragraph at lines 3236--3236 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 groups[]\T1/ptm/m/n/10 , [2860] [2861] [2862] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.parallel} ) has been already used, duplicate ignored \relax l.3517 \aliasA{parallel}{B.08 splom}{parallel} [2863] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3559--3559 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3582--3582 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2864] [2865] [2866] [2867] [2868] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3917--3917 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2869] [2870] Underfull \hbox (badness 2277) in paragraph at lines 4003--4007 []\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault set-tings by Underfull \hbox (badness 2435) in paragraph at lines 4003--4007 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2871] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4100--4100 [] \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito") [c(6, 2, 4, 7, 3, 5, 8)],[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 4102--4102 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4109--4109 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2872] [2873] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4253--4253 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4262--4266 []\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un- spec-i-fied in [2874] Underfull \hbox (badness 3219) in paragraph at lines 4289--4291 []\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i s-sued when Underfull \hbox (badness 1728) in paragraph at lines 4306--4310 []\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren t set-tings (ob-tained by [2875] Underfull \hbox (badness 5161) in paragraph at lines 4371--4375 []\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized, Underfull \hbox (badness 4913) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca n be ob-tained by [2876] Underfull \hbox (badness 1067) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/ 10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[ ]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1735) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and Underfull \hbox (badness 5231) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/ n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10 for [2877] Underfull \hbox (badness 1701) in paragraph at lines 4514--4517 []\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 plot.polygon []\T1/ptm/m/n/10 and [2878] Underfull \hbox (badness 2932) in paragraph at lines 4660--4665 []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , [2879] [2880] [2881] [2882] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4936--4936 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2883] [2884] Underfull \hbox (badness 1558) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1270) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 par.settings[]\T1/ptm/m/n/10 , Underfull \vbox (badness 1092) has occurred while \output is active [2885] Underfull \hbox (badness 10000) in paragraph at lines 5116--5119 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 , by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 . [2886] [2887] Underfull \hbox (badness 1442) in paragraph at lines 5243--5246 []\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and [2888] [2889] [2890] [2891] [2892] Underfull \hbox (badness 3646) in paragraph at lines 5582--5585 [][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw. key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm /m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call y the en-try for Overfull \hbox (36.78088pt too wide) in paragraph at lines 5612--5612 [] \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh ich.given],[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5613--5613 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2893] Underfull \hbox (badness 10000) in paragraph at lines 5695--5698 []\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i -zon-tal. Underfull \hbox (badness 2103) in paragraph at lines 5695--5698 []\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the left of pan-els us-ing [2894] Underfull \hbox (badness 1635) in paragraph at lines 5721--5726 []\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, which is to draw a strip ap-pro-pri-ate for [2895] [2896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5886--5886 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5887--5887 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5890--5890 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5893--5893 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5895--5895 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5901--5901 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5902--5902 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5903--5903 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] [2897] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5904--5904 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5905--5905 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5921--5923 []\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of Underfull \hbox (badness 2376) in paragraph at lines 5932--5934 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2898] Underfull \hbox (badness 2538) in paragraph at lines 6056--6060 \T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and Underfull \hbox (badness 4205) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e x-tra pa-ram-e-ters are passed on to Underfull \hbox (badness 4792) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the se are used (in com-bi-na-tion with [2899] [2900] Underfull \hbox (badness 10000) in paragraph at lines 6220--6224 [][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m /n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 , [2901] Underfull \vbox (badness 10000) has occurred while \output is active [2902] [2903] Underfull \hbox (badness 4242) in paragraph at lines 6367--6372 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2904] [2905] Underfull \hbox (badness 3601) in paragraph at lines 6483--6488 []\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m /n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way round Underfull \hbox (badness 2486) in paragraph at lines 6483--6488 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing [2906] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6569--6569 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2907] [2908] [2909] Underfull \hbox (badness 10000) in paragraph at lines 6768--6772 []\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The Underfull \hbox (badness 10000) in paragraph at lines 6773--6775 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2910] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6869--6869 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6872--6872 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Dark Mint"),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6875--6875 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2911] [2912] [2913] [2914] [2915] Underfull \hbox (badness 1320) in paragraph at lines 7236--7243 []\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p anel func-tion that uses the raster draw- Underfull \hbox (badness 1715) in paragraph at lines 7236--7243 \T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more ef-fi-cient. When us-ing [2916] [2917] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7311--7311 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] Underfull \hbox (badness 10000) in paragraph at lines 7341--7345 []\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments to Underfull \hbox (badness 1584) in paragraph at lines 7341--7345 []\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi s func-tion is passed [2918] [2919] Underfull \hbox (badness 10000) in paragraph at lines 7446--7449 \T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/ m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by Overfull \hbox (101.58032pt too wide) in paragraph at lines 7471--7471 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2920] [2921] Underfull \hbox (badness 2012) in paragraph at lines 7621--7624 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2922] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7667--7667 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2923] [2924] Underfull \hbox (badness 1939) in paragraph at lines 7856--7864 []\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept Underfull \hbox (badness 1163) in paragraph at lines 7856--7864 \T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess " []\T1/ptm/m/n/10 adds a loess fit (same as [2925] Underfull \hbox (badness 2772) in paragraph at lines 7879--7882 []\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b e a list of ar-gu-ments to be sup-plied to [2926] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7950--7950 [] \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y = c(1/6, 4/6)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7960--7960 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2927] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8045--8045 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 8064--8064 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide ntifier, name.type)[] Underfull \vbox (badness 10000) has occurred while \output is active [2928] Underfull \hbox (badness 6428) in paragraph at lines 8113--8113 []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 , [2929] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8201--8201 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid th = 0.1, height = 0.1)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8208--8208 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, rule = "evenodd")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8210--8210 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles /RJ-2012-017/[] [2930] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8214--8214 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon, rule = "none", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8215--8215 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin g", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8216--8216 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod d", col = "grey")[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8275--8275 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2931] Underfull \hbox (badness 1436) in paragraph at lines 8330--8336 []\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c al pa-ram-e-ters for [2932] [2933] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8460--8460 [] \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave rage, grid = FALSE,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8474--8474 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2934] [2935] [2936] [2937] [2938] [2939] Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super pose Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from [2940] [2941] [2942] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9074--9074 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st ack, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9075--9075 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9087--9087 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9106--9109 []\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [ ]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in [2943] Underfull \hbox (badness 1515) in paragraph at lines 9181--9185 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2944] [2945] Underfull \hbox (badness 6316) in paragraph at lines 9287--9292 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2946] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9397--9397 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2947] Underfull \vbox (badness 10000) has occurred while \output is active [2948] [2949] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9536--9536 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2950] Underfull \hbox (badness 1028) in paragraph at lines 9600--9605 \T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r ight.x, right.y, left.name, right.x.name, [2951] [2952] [2953] [2954] [2955] [2956] Underfull \hbox (badness 7238) in paragraph at lines 10045--10049 []\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 10045--10049 []\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4 57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 , [2957] [2958] [2959] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma} ) has been already used, duplicate ignored \relax l.10276 \aliasA{melanoma}{H melanoma}{melanoma} [2960] [2961] [2962] Underfull \hbox (badness 10000) in paragraph at lines 10438--10443 \T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower Overfull \hbox (9.78043pt too wide) in paragraph at lines 10511--10511 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2963] [2964]) (./mgcv-pkg.tex Chapter 24. [2965] [2966] Overfull \hbox (6.78088pt too wide) in paragraph at lines 160--160 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL, Overfull \hbox (18.78088pt too wide) in paragraph at lines 163--163 [] \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret e=FALSE,[] [2967] Overfull \hbox (48.78088pt too wide) in paragraph at lines 165--165 [] \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in tercept=NULL,[] Underfull \hbox (badness 1142) in paragraph at lines 185--189 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from Underfull \hbox (badness 1043) in paragraph at lines 210--215 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2968] [2969] [2970] [2971] Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [2972] Overfull \hbox (4.38043pt too wide) in paragraph at lines 427--427 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2 ,bs=bs,k=k)+[] [2973] [2974] [2975] [2976] [2977] Underfull \hbox (badness 2922) in paragraph at lines 723--724 []\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" []\T1/ptm/m/n/10 and [2978] [2979] Underfull \hbox (badness 1406) in paragraph at lines 793--794 []\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t ing en-vi-ron-ment vari-able [2980] [2981] Underfull \hbox (badness 1158) in paragraph at lines 903--905 []\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe n us-ing pe-nal-ized re-gres-sion [2982] Underfull \hbox (badness 1259) in paragraph at lines 966--967 []\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro -duc-tion with R (2nd edi-tion). [2983] Underfull \vbox (badness 10000) has occurred while \output is active [2984] [2985] [2986] [2987] [2988] [2989] [2990] [2991] [2992] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1502--1502 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1503--1503 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1520--1520 [] \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor e residuals",[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1532--1532 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Underfull \vbox (badness 10000) has occurred while \output is active [2993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1541--1541 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in d]),type="l",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1543--1543 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1574--1574 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights= d,data=surv)[] Underfull \vbox (badness 10000) has occurred while \output is active [2994] [2995] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1657--1657 [] \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid), initial = 0,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1668--1668 [] \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][ nrow(um)] <- 1[] Underfull \vbox (badness 10000) has occurred while \output is active [2996] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1707--1707 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2997] [2998] [2999] [3000] [3001] [3002] [3003] [3004] [3005] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2234--2234 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di screte=TRUE)[] [3006] [3007] [3008] [3009] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2470--2470 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [3010] [3011] [3012] [3013] [3014] [3015] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2827--2827 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2839--2842 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 2852--2856 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3016] Underfull \hbox (badness 1043) in paragraph at lines 2878--2884 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [3017] Underfull \hbox (badness 1389) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 A list spec-i-fy-ing the neigh-bour-hood struc-ture for [][][] \T1/pcr/m/n/10 NCV[][][][]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 2495) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 gives the points dropped for the neigh-bour-hood []\T1/pcr/m/n /10 j[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 d []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 1558) in paragraph at lines 2955--2956 \T1/ptm/m/n/10 of in-dices of points to pre-dict, with cor-re-spond-ing end-poi nts []\T1/pcr/m/n/10 md[]\T1/ptm/m/n/10 . So [3018] [3019] Underfull \hbox (badness 1043) in paragraph at lines 3042--3048 \T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v en-tion mech-a-nism de-scribed in [3020] [3021] Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [3022] Underfull \vbox (badness 10000) has occurred while \output is active [3023] Underfull \vbox (badness 10000) has occurred while \output is active [3024] [3025] [3026] [3027] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3505--3505 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, Overfull \hbox (0.78088pt too wide) in paragraph at lines 3506--3506 [] \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F ALSE,[] [3028] [3029] [3030] [3031] [3032] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3841--3841 [] \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco l(x)),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3844--3844 [] \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol (x)),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3845--3845 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [3033] [3034] [3035] [3036] [3037] [3038] [3039] [3040] Underfull \hbox (badness 5189) in paragraph at lines 4321--4325 []\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm /m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms ( see [3041] [3042] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4438--4438 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Underfull \vbox (badness 10000) has occurred while \output is active [3043] [3044] [3045] Underfull \hbox (badness 1184) in paragraph at lines 4605--4609 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [3046] [3047] [3048] [3049] [3050] [3051] [3052] [3053] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5070--5070 [] \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i d=1)+s(x1,id=1)+[] [3054] [3055] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5218--5218 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [3056] [3057] Underfull \hbox (badness 1142) in paragraph at lines 5345--5349 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3058] Underfull \hbox (badness 10000) in paragraph at lines 5417--5426 []\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver- gence fail-ures, con-sider mod-i-fy-ing [3059] [3060] Underfull \hbox (badness 5970) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor -re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm /m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 1418) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1 0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [ ]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project . [3061] Underfull \vbox (badness 10000) has occurred while \output is active [3062] [3063] [3064] [3065] Underfull \hbox (badness 1577) in paragraph at lines 5882--5885 []\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see [] [][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment [3066] Underfull \hbox (badness 2181) in paragraph at lines 5889--5890 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [3067] [3068] [3069] [3070] [3071] [3072] [3073] [3074] [3075] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6388--6388 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app rox=0) Underfull \hbox (badness 6708) in paragraph at lines 6394--6395 []\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(.. .,fit=FALSE) []\T1/ptm/m/n/10 or [3076] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6443--6443 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple[] [3077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6468--6468 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6497--6497 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] Underfull \vbox (badness 10000) has occurred while \output is active [3078] [3079] [3080] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6619--6619 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [3081] [3082] [3083] [3084] [3085] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6947--6947 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6949--6949 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6970--6974 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3086] [3087] [3088] [3089] [3090] [3091] [3092] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7292--7292 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999, all.derivs=FALSE) [3093] [3094] [3095] Underfull \vbox (badness 10000) has occurred while \output is active [3096] Underfull \vbox (badness 10000) has occurred while \output is active [3097] [3098] [3099] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7701--7701 []\T1/pcr/m/n/10 lp(c,A,b,C=NULL,d=NULL,Bi=NULL,maxit=max(1000, nrow(A) * 10), phase1 = FALSE) [3100] [3101] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7817--7817 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want to rule the world.",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7844--7844 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3102] [3103] [3104] [3105] [3106] [3107] [3108] [3109] Underfull \vbox (badness 4805) has occurred while \output is active [3110] [3111] [3112] Underfull \hbox (badness 1242) in paragraph at lines 8461--8462 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3113] [3114] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8548--8548 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3115] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8611--8611 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate d covariates[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8630--8630 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] [3116] [3117] [3118] [3119] [3120] [3121] [3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130] [3131] [3132] [3133] [3134] [3135] [3136] Underfull \vbox (badness 10000) has occurred while \output is active [3137] [3138] Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim .pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3118) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 . [3139] Underfull \hbox (badness 10000) in paragraph at lines 9988--9991 []\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p dTens[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3108) in paragraph at lines 9988--9991 []\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n ot nor-mally be [3140] [3141] [3142] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10202--10202 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10206--10206 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3143] [3144] [3145] Underfull \hbox (badness 1629) in paragraph at lines 10362--10367 []\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion is some-times to clone the [3146] [3147] [3148] [3149] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread s=1,gc.level=0,...)[] Underfull \hbox (badness 1062) in paragraph at lines 10612--10616 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para- [3150] [3151] [3152] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10745--10745 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3153] [3154] [3155] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10906--10906 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi nal grid points[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10907--10907 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1) ,x3=rep(0,n))[] Underfull \vbox (badness 10000) has occurred while \output is active [3156] Underfull \vbox (badness 10000) has occurred while \output is active [3157] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11046--11046 [] \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s mooth deriv i[] [3158] Underfull \hbox (badness 1205) in paragraph at lines 11084--11085 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11084--11085 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for Underfull \hbox (badness 1975) in paragraph at lines 11090--11095 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3159] Underfull \hbox (badness 1205) in paragraph at lines 11174--11175 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11174--11175 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3160] Underfull \hbox (badness 10000) in paragraph at lines 11243--11246 []\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from Underfull \hbox (badness 2057) in paragraph at lines 11243--11246 [][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al -though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [ ]\T1/ptm/m/n/10 are not needed, [3161] Underfull \vbox (badness 10000) has occurred while \output is active [3162] Underfull \hbox (badness 1253) in paragraph at lines 11364--11366 []\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion cri-te-rion re-ported is one of GCV, [3163] [3164] [3165] [3166] [3167] Underfull \hbox (badness 1946) in paragraph at lines 11615--11622 []\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef- fects in a GAM in the same Underfull \hbox (badness 2221) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre s-sion terms. This method Underfull \hbox (badness 2042) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a model: see [3168] [3169] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11695--11695 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11705--11705 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] Underfull \hbox (badness 10000) in paragraph at lines 11736--11739 []\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/ 10 "deviance"[]\T1/ptm/m/n/10 , [3170] [3171] [3172] [3173] [3174] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12037--12037 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU LL,pc=NULL) [3175] [3176] [3177] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12197--12197 []\T1/pcr/m/n/10 scasm(formula,family=gaussian(),data=list(),weights=NULL,subs et=NULL,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 12199--12199 [] \T1/pcr/m/n/10 knots=NULL,sp=NULL,gamma=1,fit=TRUE,G=NULL,drop.unused. levels=TRUE,[] Underfull \hbox (badness 1728) in paragraph at lines 12207--12210 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 12221--12225 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3178] [3179] [3180] Underfull \vbox (badness 10000) has occurred while \output is active [3181] [3182] [3183] [3184] [3185] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12681--12681 [] \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq)) + (eps/del))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12695--12695 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1 0), ~1, ~1),[] Underfull \vbox (badness 10000) has occurred while \output is active [3186] [3187] Underfull \hbox (badness 3861) in paragraph at lines 12797--12800 []\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to model ma-trix X, or, if Overfull \hbox (36.78088pt too wide) in paragraph at lines 12806--12806 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3188] Underfull \hbox (badness 10000) in paragraph at lines 12823--12827 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- [3189] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12886--12886 []\T1/pcr/m/n/10 Sl.setup(G,cholesky=FALSE,no.repara=FALSE,sparse=FALSE,keepS= FALSE) [3190] [3191] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13010--13010 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$ vectors[,ind]))[] Underfull \hbox (badness 1975) in paragraph at lines 13021--13026 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3192] Underfull \hbox (badness 1803) in paragraph at lines 13098--13102 \T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n /10 "NA"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 1502) in paragraph at lines 13110--13122 []\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec [3193] Underfull \hbox (badness 2401) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able . Plot meth-ods can be Underfull \hbox (badness 2970) in paragraph at lines 13127--13131 \T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 , [3194] [3195] [3196] Underfull \hbox (badness 6876) in paragraph at lines 13322--13328 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on e or two vari-ables, spec-i-fied via terms like [3197] Underfull \hbox (badness 10000) in paragraph at lines 13366--13367 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3198] [3199] Underfull \hbox (badness 10000) in paragraph at lines 13489--13490 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3200] Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 []\T1/ptm/m/n/10 Shape con-strained ver-sions for use with [][][]\T1/pcr/m/n/10 scasm[][][] []\T1/ptm/m/n/10 are spec-i-fied by model terms Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 \T1/ptm/m/n/10 like []\T1/pcr/m/n/10 s(x,bs="sc",xt="m+") []\T1/ptm/m/n/10 for a mono-tonic in-creas-ing func-tion, or Overfull \hbox (4.38043pt too wide) in paragraph at lines 13546--13546 [] \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs, m=c(4,3,0))+[] [3201] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13558--13558 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13570--13570 [] \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions and intervals[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13575--13575 [] \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i ntervals away[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13581--13581 [] \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w ild and wide[] Overfull \hbox (3.70428pt too wide) in paragraph at lines 13582--13582 [] \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1 /pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] Underfull \vbox (badness 10000) has occurred while \output is active [3202] Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 \T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or [3203] [3204] Underfull \hbox (badness 10000) in paragraph at lines 13781--13782 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3205] [3206] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13862--13862 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data) ## first deriv penalty[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13863--13863 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi ed 2nd deriv[] [3207] [3208] [3209] Underfull \hbox (badness 10000) in paragraph at lines 14016--14017 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3210] [3211] [3212] [3213] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14266--14266 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3214] Underfull \hbox (badness 10000) in paragraph at lines 14327--14329 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3215] [3216] Underfull \hbox (badness 10000) in paragraph at lines 14486--14489 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met hod a smooth spec-i-fi-ca-tion ob- Underfull \hbox (badness 3312) in paragraph at lines 14486--14489 \T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs ="re",)[]\T1/ptm/m/n/10 . For the Underfull \hbox (badness 7099) in paragraph at lines 14486--14489 []\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\ T1/pcr/m/n/10 "random.effect" [3217] [3218] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14572--14572 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3219] Underfull \hbox (badness 10000) in paragraph at lines 14617--14623 []\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a Underfull \hbox (badness 7832) in paragraph at lines 14617--14623 []\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for- [3220] [3221] [3222] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14830--14830 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] Underfull \vbox (badness 10000) has occurred while \output is active [3223] Underfull \vbox (badness 10000) has occurred while \output is active [3224] Underfull \hbox (badness 10000) in paragraph at lines 14933--14941 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th e sphere, via terms like Underfull \hbox (badness 10000) in paragraph at lines 14959--14960 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3225] [3226] [3227] Underfull \hbox (badness 7613) in paragraph at lines 15104--15107 []\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [ ]\T1/ptm/m/n/10 pro-duced by the Underfull \hbox (badness 1546) in paragraph at lines 15125--15126 []\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a sin-gle smooth-ing pa-ram-e- [3228] Overfull \hbox (128.58029pt too wide) in paragraph at lines 15171--15171 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs ="sz",id=1),data=dat,method="REML")[] [3229] [3230] [3231] Underfull \hbox (badness 3396) in paragraph at lines 15317--15320 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an y num-ber of vari-ables, spec-i-fied via terms like Underfull \hbox (badness 10000) in paragraph at lines 15362--15364 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3232] [3233] [3234] [3235] [3236] [3237] Underfull \hbox (badness 10000) in paragraph at lines 15653--15655 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see [3238] Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/ 10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical .Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 , [3239] [3240] [3241] [3242] [3243] Underfull \hbox (badness 2158) in paragraph at lines 15970--15970 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3244] Overfull \hbox (48.78088pt too wide) in paragraph at lines 16049--16049 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3245] [3246] Overfull \hbox (12.78088pt too wide) in paragraph at lines 16183--16183 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3247] [3248] Underfull \hbox (badness 4846) in paragraph at lines 16314--16317 []\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or es-ti-ma-tors if [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262] [3263] [3264] [3265] [3266] [3267] [3268] Overfull \hbox (120.78088pt too wide) in paragraph at lines 17541--17541 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3269] Underfull \hbox (badness 1715) in paragraph at lines 17563--17564 []\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object $Vc []\T1/ptm/m/n/10 (if avail-able) from a [3270] [3271] [3272] Overfull \hbox (54.78088pt too wide) in paragraph at lines 17754--17754 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r ow=-1,ar.w=-1, Overfull \hbox (48.78088pt too wide) in paragraph at lines 17756--17756 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar. w=-1,lt=NULL)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17758--17758 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 17759--17759 []\T1/pcr/m/n/10 ijXVXd(i,j,X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,r t=NULL)[] [3273] Underfull \hbox (badness 10000) in paragraph at lines 17779--17780 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 17779--17780 []\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le cted by []\T1/pcr/m/n/10 ar.row [3274] [3275] [3276] [3277] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17977--17977 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li near predictor,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17978--17978 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17990--17990 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3278] [3279] [3280]) (./nlme-pkg.tex Chapter 25. [3281] Underfull \hbox (badness 1009) in paragraph at lines 78--87 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3282] Underfull \hbox (badness 1009) in paragraph at lines 168--177 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3283] [3284] [3285] [3286] Overfull \hbox (4.38043pt too wide) in paragraph at lines 448--448 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3287] [3288] [3289] Overfull \hbox (20.58041pt too wide) in paragraph at lines 589--589 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 605--605 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n on-sensical!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 608--608 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 615--615 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3290] [3291] [3292] [3293] [3294] [3295] [3296] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1078--1078 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3297] [3298] Underfull \hbox (badness 5446) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel .htm[]\T1/ptm/m/n/10 ', the first edi-tion of [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 1617--1620 [][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed. effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 3780) in paragraph at lines 1634--1636 []\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a ted with each com-po-nent of the [3306] [3307] [3308] [3309] [3310] Underfull \hbox (badness 2042) in paragraph at lines 1975--1981 \T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , [3311] [3312] Underfull \hbox (badness 1132) in paragraph at lines 2127--2129 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3313] [3314] Underfull \hbox (badness 4168) in paragraph at lines 2238--2244 [][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [3315] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2263--2263 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 2816--2820 [][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[ ][][][]\T1/ptm/m/n/10 , [3324] [3325] [3326] [3327] [3328] [3329] [3330] [3331] [3332] [3333] [3334] [3335] Underfull \hbox (badness 6493) in paragraph at lines 3548--3556 [][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T 1/ptm/m/n/10 , [3336] [3337] [3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348] [3349] [3350] [3351] [3352] [3353] [3354] [3355] [3356] [3357] [3358] Underfull \hbox (badness 10000) in paragraph at lines 5116--5120 [][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 , [3359] [3360] [3361] [3362] [3363] [3364] [3365] Underfull \hbox (badness 10000) in paragraph at lines 5540--5543 [][][]\T1/pcr/m/n/10 getGroups.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGro ups.gls[][][][]\T1/ptm/m/n/10 , [3366] [3367] [3368] [3369] [3370] [3371] [3372] [3373] [3374] Underfull \hbox (badness 2799) in paragraph at lines 6044--6050 \T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" [] \T1/ptm/m/n/10 for the random-effects [3375] Underfull \hbox (badness 7133) in paragraph at lines 6105--6109 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3376] Underfull \hbox (badness 2057) in paragraph at lines 6194--6205 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][] \T1/ptm/m/n/10 , [3377] Underfull \hbox (badness 10000) in paragraph at lines 6258--6260 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3378] [3379] [3380] [3381] Underfull \hbox (badness 7133) in paragraph at lines 6505--6509 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3382] Underfull \hbox (badness 10000) in paragraph at lines 6602--6608 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 , Overfull \hbox (54.78088pt too wide) in paragraph at lines 6629--6629 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3383] Underfull \hbox (badness 10000) in paragraph at lines 6667--6669 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3384] [3385] [3386] [3387] Underfull \hbox (badness 10000) in paragraph at lines 6936--6943 [][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff GroupedData[][][][]\T1/ptm/m/n/10 , [3388] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6954--6954 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6959--6959 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 6981--6983 []\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr oupedData []\T1/ptm/m/n/10 ob-ject or a [3389] [3390] [3391] Underfull \hbox (badness 10000) in paragraph at lines 7196--7202 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.lmeStruct[][][][]\T1/ptm/m/n/10 , [3392] [3393] [3394] Underfull \hbox (badness 1997) in paragraph at lines 7341--7349 []\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial -iza-tion and op-ti- Underfull \hbox (badness 2205) in paragraph at lines 7341--7349 \T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n /10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20, Underfull \hbox (badness 3118) in paragraph at lines 7364--7367 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/ n/10 , [3395] [3396] [3397] Underfull \hbox (badness 3354) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/ 10 which []\T1/ptm/m/n/10 is not equal to [3398] [3399] [3400] [3401] [3402] [3403] [3404] [3405] Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/ ptm/m/n/10 , [3406] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8144--8144 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8153--8175 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3407] [3408] [3409] [3410] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8418--8418 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, Underfull \hbox (badness 1189) in paragraph at lines 8443--8445 []\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion per-mit-ted for [3411] Underfull \hbox (badness 10000) in paragraph at lines 8466--8468 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is Overfull \hbox (9.78043pt too wide) in paragraph at lines 8509--8509 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3412] [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] Underfull \hbox (badness 10000) in paragraph at lines 9266--9273 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 9277--9277 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3424] [3425] [3426] [3427] [3428] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix.1} ) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3429] Underfull \hbox (badness 10000) in paragraph at lines 9648--9651 []\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a s Underfull \hbox (badness 3108) in paragraph at lines 9692--9695 []\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive -definite Underfull \hbox (badness 2521) in paragraph at lines 9692--9695 \T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10 . Must have the same di-men-sions as [3430] [3431] [3432] [3433] [3434] [3435] [3436] [3437] [3438] [3439] [3440] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10362--10362 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3441] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10366--10366 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10395--10421 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3442] [3443] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10549--10549 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3444] [3445] [3446] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10700--10700 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10711--10716 []\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [ ][][]\T1/pcr/m/n/10 nlm[][][] Underfull \hbox (badness 6961) in paragraph at lines 10733--10737 []\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control= [3447] Underfull \hbox (badness 10000) in paragraph at lines 10752--10754 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3448] [3449] [3450] [3451] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11048--11048 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* message instead of one *each*[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 11049--11049 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3452] [3453] [3454] [3455] [3456] [3457] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11439--11439 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3458] [3459] [3460] [3461] [3462] [3463] Underfull \hbox (badness 6268) in paragraph at lines 11826--11836 [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 , [3464] [3465] [3466] [3467] Underfull \hbox (badness 10000) in paragraph at lines 12087--12093 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 , [3468] [3469] [3470] [3471] [3472] Underfull \hbox (badness 6876) in paragraph at lines 12409--12411 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/ 10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n /10 object []\T1/ptm/m/n/10 will be con-structed from [3473] [3474] Underfull \hbox (badness 2452) in paragraph at lines 12565--12572 [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/ n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 , [3475] Underfull \hbox (badness 10000) in paragraph at lines 12631--12637 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 , [3476] [3477] [3478] [3479] [3480] [3481] [3482] [3483] [3484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13220--13220 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3485] [3486] [3487] [3488] [3489] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13585--13585 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3490] Underfull \hbox (badness 10000) in paragraph at lines 13612--13615 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3491] Underfull \hbox (badness 1838) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/ n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner Underfull \hbox (badness 3713) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1 /pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/ 10 inner Overfull \hbox (12.78088pt too wide) in paragraph at lines 13712--13712 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3492] Underfull \hbox (badness 10000) in paragraph at lines 13719--13722 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a Underfull \hbox (badness 2469) in paragraph at lines 13719--13722 []\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary co-vari-ate and a sin-gle [3493] Underfull \hbox (badness 10000) in paragraph at lines 13827--13830 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3494] [3495] Underfull \hbox (badness 10000) in paragraph at lines 13921--13923 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe dData[][][][]\T1/ptm/m/n/10 , [3496] [3497] [3498] [3499] [3500] [3501] [3502] [3503] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14445--14445 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3504] [3505] [3506] [3507] [3508] [3509] [3510] [3511] [3512] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects.1}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} [3513] [3514] [3515] [3516] [3517] [3518] [3519] [3520] [3521] [3522] [3523] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15734--15734 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles [3524] Underfull \hbox (badness 1009) in paragraph at lines 15786--15795 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3525] [3526] Overfull \hbox (66.78088pt too wide) in paragraph at lines 15933--15933 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3527] [3528] [3529] [3530] [3531] Underfull \hbox (badness 10000) in paragraph at lines 16268--16274 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 summary.reStruct[][][][]\T1/ptm/m/n/10 , [3532] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16300--16300 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3533] [3534] [3535] [3536] [3537] [3538] [3539] Underfull \hbox (badness 1728) in paragraph at lines 16786--16789 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3540] [3541] [3542] [3543] [3544] Underfull \hbox (badness 1803) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite, Underfull \hbox (badness 10000) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Underfull \hbox (badness 7888) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[ ]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object) [3545] Underfull \hbox (badness 10000) in paragraph at lines 17191--17192 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17192--17193 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3546] [3547] [3548] [3549] Underfull \hbox (badness 10000) in paragraph at lines 17441--17449 [][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1 /ptm/m/n/10 , [3550] [3551] [3552] [3553] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17713--17713 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m odel and use Overfull \hbox (25.98041pt too wide) in paragraph at lines 17715--17715 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3554] [3555] [3556] [3557] [3558] [3559] Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rLin[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr am.corSpher[][][][]\T1/ptm/m/n/10 , [3560] Underfull \hbox (badness 3579) in paragraph at lines 18185--18190 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3561] Underfull \hbox (badness 3579) in paragraph at lines 18249--18254 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3562] Underfull \hbox (badness 3579) in paragraph at lines 18312--18317 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3563] Underfull \hbox (badness 1577) in paragraph at lines 18373--18375 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal Underfull \hbox (badness 3579) in paragraph at lines 18375--18380 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3564] Underfull \hbox (badness 3579) in paragraph at lines 18438--18443 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rRatio[][][][]\T1/ptm/m/n/10 , [3565] Underfull \hbox (badness 3579) in paragraph at lines 18510--18515 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3566] [3567] Underfull \hbox (badness 1009) in paragraph at lines 18656--18665 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3568] [3569] Underfull \hbox (badness 1009) in paragraph at lines 18788--18797 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] [3578]) (./nnet-pkg.tex Chapter 26. pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom} ) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom. 1}) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3579] Overfull \hbox (12.78088pt too wide) in paragraph at lines 71--71 [] \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored = FALSE,[] [3580] [3581] [3582] Overfull \hbox (15.18042pt too wide) in paragraph at lines 374--374 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 431--431 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c( 0,0,1),50)),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 434--434 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3584] [3585] Overfull \hbox (15.18042pt too wide) in paragraph at lines 514--514 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3586]) (./rpart-pkg.tex Chapter 27. [3587] [3588] [3589] [3590] Overfull \hbox (36.78088pt too wide) in paragraph at lines 324--324 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse = TRUE, ...)[] [3591] Underfull \hbox (badness 2351) in paragraph at lines 349--353 \T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1 /pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\ T1/ptm/m/n/10 im-plies [3592] [3593] [3594] Underfull \hbox (badness 1442) in paragraph at lines 592--598 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil l be at the hor-i-zon-tal plot co-or-di-nates of [3595] [3596] Overfull \hbox (0.78088pt too wide) in paragraph at lines 738--738 [] \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep = ""),[] Underfull \hbox (badness 10000) in paragraph at lines 771--775 []\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), adds to the la-bel Underfull \hbox (badness 1142) in paragraph at lines 771--775 \T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [ ]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n [3597] [3598] [3599] Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie s, probabilities[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 934--934 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d igits"),[] [3600] [3601] [3602] [3603] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1180--1180 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m ethod, Overfull \hbox (12.78088pt too wide) in paragraph at lines 1181--1181 [] \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos t, ...)[] Underfull \hbox (badness 2846) in paragraph at lines 1243--1245 []\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n /10 rpart []\T1/ptm/m/n/10 al-go-rithm. See [3604] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1287--1287 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the text is clipped[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1303--1303 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c p = 0.01, Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304 [] \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate = 2, xval = 10,[] [3605] [3606] [3607] [3608] [3609] [3610] [3611] Underfull \hbox (badness 1565) in paragraph at lines 1760--1763 []\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val- ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ', [3612] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1854--1854 [] \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n = FALSE,[] [3613] [3614] [3615]) (./spatial-pkg.tex [3616] Chapter 28. [3617] [3618] [3619] [3620] [3621] [3622] Underfull \hbox (badness 10000) in paragraph at lines 420--424 [3623] [3624] [3625] [3626] [3627] [3628] [3629] [3630] [3631] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo}) ha s been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo.1}) has been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} [3632] [3633] [3634] [3635] [3636]) (./survival-pkg.tex Chapter 29. [3637] [3638] Overfull \hbox (31.3804pt too wide) in paragraph at lines 173--173 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data = lung, nmin = 1[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 192--192 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2) # Nearly the same, until t he last point[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 195--195 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease. See section 8.5 of Therneau a nd Grambsch.[] [3639] [3640] Underfull \hbox (badness 6412) in paragraph at lines 284--286 []\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as long as [3641] [3642] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml}) has been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml.1}) h as been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 491--491 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da ta = ovarian) Overfull \hbox (4.38043pt too wide) in paragraph at lines 493--493 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3644] Overfull \hbox (6.78088pt too wide) in paragraph at lines 525--525 [] \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog), lung)[] [3645] Underfull \hbox (badness 1178) in paragraph at lines 605--615 []\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s er-va-tion with co-vari-ate vec-tor z, [3646] [3647] [3648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 798--798 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (30.78088pt too wide) in paragraph at lines 814--814 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef ix = TRUE, [3649] [3650] Overfull \hbox (48.78088pt too wide) in paragraph at lines 897--897 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3651] [3652] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1040--1040 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3653] [3654] Underfull \hbox (badness 1097) in paragraph at lines 1219--1221 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. [3655] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1239--1239 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3656] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1356--1356 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3657] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1417--1417 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c luster=litter, pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h as been already used, duplicate ignored \relax l.1423 ...erapy for Stage B/C colon cancer}{colon} [3658] [3659] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1527--1527 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3660] [3661] Underfull \hbox (badness 1242) in paragraph at lines 1658--1668 \T1/ptm/m/n/10 cor-re-sponds to Har-rell's C statis-tic, which is closely re-la ted to the Gehan-Wilcoxon test; [3662] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1765--1765 []\T1/pcr/m/n/9 options(na.action= na.exclude) # fit2a has many more missings, this causes[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1766--1766 [] \T1/pcr/m/n/9 # predict to return nrow(flchain) values, but has to be set b efore the fit[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1767--1767 []\T1/pcr/m/n/9 fit2a <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + log(creatinine), binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1768--1768 []\T1/pcr/m/n/9 fit2b <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + kappa + lambda, binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1772--1772 []\T1/pcr/m/n/9 coef(cfit) # males and females differ in creatinine, less in kappa/lambda[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1779--1779 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3663] [3664] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1873--1873 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3665] [3666] [3667] [3668] Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 []\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f ol-low the ad-vice of Underfull \hbox (badness 7486) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T 1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe- Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3669] [3670] Underfull \hbox (badness 3861) in paragraph at lines 2315--2319 [][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][] []\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\ T1/ptm/m/n/10 , [3671] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2370--2370 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE,[] [3672] [3673] [3674] [3675] [3676] [3677] [3678] [3679] [3680] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3024--3024 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3681] [3682] [3683] [3684] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3317--3317 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3685] [3686] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3459--3459 []\T1/pcr/m/n/10 fromtimeline(formula, data, subset, id, repeated = FALSE, lvc f = TRUE, [3687] [3688] [3689] Underfull \hbox (badness 1019) in paragraph at lines 3666--3668 []\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma other [3690] [3691] [3692] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3819--3819 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) Overfull \hbox (36.7804pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre ssion", "death")))[] Underfull \hbox (badness 1389) in paragraph at lines 3868--3870 []\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan -Meier plot gen-er-ated with [3693] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3694] [3695] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4020--4020 [] \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3696] [3697] Overfull \hbox (467.89665pt too wide) in alignment at lines 4159--4159 [] [] [3698] [3699] [3700] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4373--4373 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3701] [3702] [3703] [3704] [3705] [3706] [3707] [3708] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4849--4849 [] \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5" , sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3709] [3710] [3711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5044--5044 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno rm(228, 0, 2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5049--5049 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5053--5053 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3712] [3713] [3714] [3715] [3716] [3717] [3718] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5500--5500 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5504--5504 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "arcsin", "none"),[] [3719] [3720] Underfull \hbox (badness 2608) in paragraph at lines 5626--5637 []\T1/ptm/m/n/10 One of []\T1/pcr/m/n/10 "plain"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "log" []\T1/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "log-log"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , or [3721] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5742--5742 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3722] [3723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5898--5898 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] [3724] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5906--5906 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3725] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5992--5992 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6071--6071 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6074--6074 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), maxlabel=25, ...)[] [3727] Underfull \hbox (badness 1852) in paragraph at lines 6148--6150 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt m/m/n/10 , which is the re-sult of the [3728] [3729] [3730] [3731] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6402--6402 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2 ), se.fit=TRUE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6414--6414 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval ues smooth it.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6416--6416 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g ., svyglm, but[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6440--6440 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me thod, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6441--6441 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3732] [3733] [3734] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6604--6604 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3735] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6706--6706 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age + sex, mgus,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6727--6727 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50 ,60,70,100)) +[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6729--6729 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3736] [3737] [3738] [3739] Underfull \hbox (badness 3780) in paragraph at lines 6968--6972 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3740] [3741] [3742] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7218--7218 []\T1/pcr/m/n/9 gfit <- survfit(Surv(day1, day2, status) ~ batch, braking, id= locomotive)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7224--7224 []\T1/pcr/m/n/9 # natural target, an estimate of the number of replacements b y a given time[] [3743] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7226--7226 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need to jitter one[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0)) # first of a tie[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7232--7232 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len gth(temp)]))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7259--7259 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7265--7265 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfb etas")),[] [3744] [3745] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7396--7396 [] \T1/pcr/m/n/10 type="pstate", collapse=FALSE, weighted= collapse, data.f rame=FALSE,[] [3746] [3747] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7495--7495 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 7507--7510 []\T1/pcr/m/n/10 "dfbetas"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "working"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "ldcase"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lsresp "[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and [3748] [3749] [3750] [3751] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7819--7819 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] [3752] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7820--7820 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3753] Underfull \hbox (badness 3780) in paragraph at lines 7895--7899 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3754] [3755] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8016--8016 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE, [3756] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8099--8099 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)] # rem ove duplicate times[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8103--8103 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times= 365*c(3, 5))[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solder}) has been already used, duplicate ignored \relax l.8107 ...ata from a soldering experiment}{solder} [3757] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8168--8168 []\T1/pcr/m/n/9 dummy <- expand.grid(Opening= c("S", "M", "L"), Solder=c("Thin ", "Thick"))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8170--8170 [] \T1/pcr/m/n/9 dimnames=list(Opening= c("S", "M", "L"), Solder=c( "Thin", "Thick")))[] [3758] Underfull \hbox (badness 3780) in paragraph at lines 8207--8211 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther Overfull \hbox (24.78088pt too wide) in paragraph at lines 8236--8236 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3759] [3760] [3761] [3762] [3763] Overfull \hbox (42.78088pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/10 event = TRUE, pyears = TRUE, expected = TRUE, rate = FALSE, r r =expected,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8603--8603 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3764] [3765] [3766] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8761--8761 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8764--8764 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] [3767] [3768] [3769] [3770] [3771] Underfull \hbox (badness 1253) in paragraph at lines 9247--9250 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods first con-struct a sur-vival curve us-ing [3772] [3773] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9345--9345 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3774] [3775] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9483--9483 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3776] [3777] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9683--9683 []\T1/pcr/m/n/9 check <- coxph(Surv(time, status) ~ factor(pat.karno) + strata (inst), lung)[] [3778] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9689--9689 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9714--9714 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 9756--9762 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3779] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9808--9808 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3780] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9894--9894 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3781] [3782] [3783] Underfull \hbox (badness 10000) in paragraph at lines 10114--10119 [][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 , [3784] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10134--10134 [] \T1/pcr/m/n/10 se.fit=TRUE, conf.int=.95, individual=FALSE, stype=2, ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10135--10135 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10140--10140 [] \T1/pcr/m/n/10 se.fit=FALSE, conf.int=.95, individual=FALSE, stype=2 , ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10141--10141 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3785] [3786] [3787] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10363--10363 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3788] Underfull \hbox (badness 1924) in paragraph at lines 10452--10463 \T1/ptm/m/n/10 The log-log op-tion bases the in-ter-vals on the log haz-ard or log(- Underfull \hbox (badness 4441) in paragraph at lines 10504--10514 []\T1/ptm/m/n/10 by de-fault, the surv-fit rou-tines only re-turn in-for-ma-tio n at the [3789] Underfull \hbox (badness 2653) in paragraph at lines 10516--10521 \T1/pcr/m/n/10 ctype=1[]\T1/ptm/m/n/10 , "fleming-harrington" which is equiv-a- lent to []\T1/pcr/m/n/10 stype=2, [3790] [3791] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10712--10712 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3792] [3793] [3794] [3795] [3796] [3797] Overfull \hbox (30.78088pt too wide) in paragraph at lines 11144--11144 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit, survtype, Underfull \hbox (badness 1354) in paragraph at lines 11185--11189 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3798] Overfull \hbox (120.78088pt too wide) in paragraph at lines 11229--11229 []\T1/pcr/m/n/10 survfit_confint(p, se, logse = TRUE, conf.type, conf.int = 0. 95, selow, ulimit = TRUE) [3799] Overfull \hbox (60.78088pt too wide) in paragraph at lines 11288--11288 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3800] [3801] Underfull \hbox (badness 2035) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su rvreg.distributions[][][][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T 1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p tm/m/n/10 , Underfull \hbox (badness 1297) in paragraph at lines 11452--11459 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 ,[]\T1/pcr/m/n/10 "lognormal" []\T1 /ptm/m/n/10 and []\T1/pcr/m/n/10 "loglogistic"[]\T1/ptm/m/n/10 . Oth-er-wise, i t is [3802] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11548--11548 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3803] [3804] [3805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11705--11705 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3806] [3807] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11837--11837 [] \T1/pcr/m/n/9 temp/pi, -2 *x*temp, 2*temp^2*(4*x ^2*temp -1))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11840--11840 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3808] [3809] [3810] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12025--12025 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3811] [3812] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12183--12183 []\T1/pcr/m/n/9 # The first data set contains data on 312 subjects in a clinic al trial plus[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12184--12184 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data set has data[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12190--12190 [] \T1/pcr/m/n/9 protime = tdc(day, protime), alk.phos = tdc(day , alk.phos))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12192--12192 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3813] [3814] Underfull \hbox (badness 3780) in paragraph at lines 12305--12309 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3815] [3816] [3817] [3818] [3819] [3820] Overfull \hbox (12.78088pt too wide) in paragraph at lines 12677--12677 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3821] [3822] [3823]) [3824] (./fullrefman.ind [3825] [3826] [3827] [3828] [3829] [3830] [3831] [3832] [3833] [3834] [3835] [3836] [3837] [3838] [3839] [3840] [3841] [3842] [3843] [3844] [3845] [3846] [3847] [3848] [3849] [3850] [3851] [3852] Overfull \hbox (19.3567pt too wide) in paragraph at lines 2899--2901 []| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2901--2903 []| \T1/pcr/m/n/10 smooth.construct.bs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2903--2905 []| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2905--2907 []| \T1/pcr/m/n/10 smooth.construct.ds.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2907--2909 []| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2909--2911 []| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 2911--2913 []| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2913--2915 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2915--2917 []| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2917--2919 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 2919--2921 []| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2921--2923 []| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2923--2925 []| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (43.3567pt too wide) in paragraph at lines 2925--2927 []| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2927--2929 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3853] [3854] [3855] [3856] [3857] [3858] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3555--3557 []| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3557--3559 []| \T1/pcr/m/n/10 smooth.construct.bs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3559--3561 []| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3561--3563 []| \T1/pcr/m/n/10 smooth.construct.ds.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3563--3565 []| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3565--3567 []| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 3567--3569 []| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3569--3571 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3571--3573 []| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3573--3575 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 3575--3577 []| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3577--3579 []| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3579--3581 []| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (43.3567pt too wide) in paragraph at lines 3581--3583 []| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3583--3585 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3859] [3860] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3742--3744 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , [3861] [3862] [3863] [3864] [3865] [3866] [3867] [3868] [3869] Overfull \hbox (20.8567pt too wide) in paragraph at lines 5004--5006 []\T1/pcr/m/n/10 [,Matrix,index,index,logical-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 5006--5008 []\T1/pcr/m/n/10 [,Matrix,index,index,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5008--5010 []\T1/pcr/m/n/10 [,Matrix,index,missing,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5010--5012 []\T1/pcr/m/n/10 [,Matrix,index,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5012--5014 []\T1/pcr/m/n/10 [,Matrix,lMatrix,missing,missing-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 5014--5016 []\T1/pcr/m/n/10 [,Matrix,matrix,missing,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5016--5018 []\T1/pcr/m/n/10 [,Matrix,missing,index,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5018--5020 []\T1/pcr/m/n/10 [,Matrix,missing,index,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5020--5022 []\T1/pcr/m/n/10 [,Matrix,missing,missing,logical-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5022--5024 []\T1/pcr/m/n/10 [,Matrix,missing,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5024--5026 []\T1/pcr/m/n/10 [,Matrix,nMatrix,missing,missing-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 5028--5030 []\T1/pcr/m/n/10 [,sparseVector,NULL,ANY,ANY-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 5030--5032 []\T1/pcr/m/n/10 [,sparseVector,index,missing,missing-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5032--5034 []\T1/pcr/m/n/10 [,sparseVector,lsparseVector,missing,missing-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 5034--5036 []\T1/pcr/m/n/10 [,sparseVector,missing,missing,missing-method [3870] Overfull \hbox (116.8567pt too wide) in paragraph at lines 5036--5038 []\T1/pcr/m/n/10 [,sparseVector,nsparseVector,missing,missing-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5112--5114 []\T1/pcr/m/n/10 [<-,CsparseMatrix,Matrix,missing,replValue-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 5114--5116 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,index,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5116--5118 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,index,sparseVector-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 5118--5120 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,missing,replValue-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5120--5122 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,missing,sparseVector-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5122--5124 []\T1/pcr/m/n/10 [<-,CsparseMatrix,matrix,missing,replValue-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 5124--5126 []\T1/pcr/m/n/10 [<-,CsparseMatrix,missing,index,replValue-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5126--5128 []\T1/pcr/m/n/10 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lines 6318--6320 []\T1/pcr/m/n/10 Arith,dsCMatrix,dsCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6320--6322 []\T1/pcr/m/n/10 Arith,dsparseMatrix,logical-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6322--6324 []\T1/pcr/m/n/10 Arith,dsparseMatrix,nsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6324--6326 []\T1/pcr/m/n/10 Arith,dsparseMatrix,numeric-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6326--6328 []\T1/pcr/m/n/10 Arith,dsparseVector,dsparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6328--6330 []\T1/pcr/m/n/10 Arith,dtCMatrix,dtCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6334--6336 []\T1/pcr/m/n/10 Arith,lgCMatrix,lgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6336--6338 []\T1/pcr/m/n/10 Arith,lgeMatrix,lgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6338--6340 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Arith,nsparseMatrix,dsparseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6382--6384 []\T1/pcr/m/n/10 Arith,nsparseMatrix,lsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 6384--6386 []\T1/pcr/m/n/10 Arith,nsparseMatrix,Matrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6386--6388 []\T1/pcr/m/n/10 Arith,numeric,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 6388--6390 []\T1/pcr/m/n/10 Arith,numeric,ddenseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6400--6402 []\T1/pcr/m/n/10 Arith,numeric,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 6410--6412 []\T1/pcr/m/n/10 Arith,sparseVector,ddenseMatrix-method [3880] Overfull \hbox (20.8567pt too wide) in paragraph at lines 6412--6414 []\T1/pcr/m/n/10 Arith,sparseVector,dgeMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 6414--6416 []\T1/pcr/m/n/10 Arith,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 6416--6418 []\T1/pcr/m/n/10 Arith,triangularMatrix,diagonalMatrix-method [3881] [3882] Overfull \hbox (32.8567pt too wide) in paragraph at lines 6908--6910 []\T1/pcr/m/n/10 aspell_write_personal_dictionary_file [3883] Overfull \hbox (46.01662pt too wide) in paragraph at lines 7105--7107 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , [3884] [3885] Overfull \hbox (10.01662pt too wide) in paragraph at lines 7552--7554 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3886] [3887] [3888] Overfull \hbox (2.8567pt too wide) in paragraph at lines 8038--8040 []\T1/pcr/m/n/10 chol2inv,triangularMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8081--8083 []\T1/pcr/m/n/10 Cholesky,triangularMatrix-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 8088--8090 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3889] [3890] [3891] Overfull \hbox (26.8567pt too wide) in paragraph at lines 8600--8602 []\T1/pcr/m/n/10 coerce,BunchKaufman,dtrMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8602--8604 []\T1/pcr/m/n/10 coerce,CHMsimpl,dtCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8604--8606 []\T1/pcr/m/n/10 coerce,CHMsuper,dgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8606--8608 []\T1/pcr/m/n/10 coerce,Cholesky,dtrMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8608--8610 []\T1/pcr/m/n/10 coerce,copMatrix,corMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8610--8612 []\T1/pcr/m/n/10 coerce,corMatrix,copMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8614--8616 []\T1/pcr/m/n/10 coerce,dgCMatrix,matrix.csc-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8616--8618 []\T1/pcr/m/n/10 coerce,dgRMatrix,matrix.csr-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8618--8620 []\T1/pcr/m/n/10 coerce,dgTMatrix,matrix.coo-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 8620--8622 []\T1/pcr/m/n/10 coerce,diagonalMatrix,symmetricMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 8622--8624 []\T1/pcr/m/n/10 coerce,diagonalMatrix,triangularMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8624--8626 []\T1/pcr/m/n/10 coerce,dpoMatrix,corMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8626--8628 []\T1/pcr/m/n/10 coerce,dpoMatrix,dppMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8628--8630 []\T1/pcr/m/n/10 coerce,dppMatrix,copMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8630--8632 []\T1/pcr/m/n/10 coerce,dppMatrix,dpoMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8632--8634 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coerce,graph,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8652--8654 []\T1/pcr/m/n/10 coerce,graph,TsparseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8654--8656 []\T1/pcr/m/n/10 coerce,graphAM,TsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8656--8658 []\T1/pcr/m/n/10 coerce,graphNEL,TsparseMatrix-method [3892] Overfull \hbox (14.8567pt too wide) in paragraph at lines 8672--8674 []\T1/pcr/m/n/10 coerce,Matrix,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8674--8676 []\T1/pcr/m/n/10 coerce,matrix,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8676--8678 []\T1/pcr/m/n/10 coerce,Matrix,ddenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8678--8680 []\T1/pcr/m/n/10 coerce,matrix,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8680--8682 []\T1/pcr/m/n/10 coerce,Matrix,denseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8682--8684 []\T1/pcr/m/n/10 coerce,matrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8686--8688 []\T1/pcr/m/n/10 coerce,Matrix,diagonalMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8688--8690 []\T1/pcr/m/n/10 coerce,matrix,diagonalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8702--8704 []\T1/pcr/m/n/10 coerce,Matrix,dsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8704--8706 []\T1/pcr/m/n/10 coerce,matrix,dsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8706--8708 []\T1/pcr/m/n/10 coerce,Matrix,generalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8708--8710 []\T1/pcr/m/n/10 coerce,matrix,generalMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8718--8720 []\T1/pcr/m/n/10 coerce,Matrix,ldenseMatrix-method 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paragraph at lines 8754--8756 []\T1/pcr/m/n/10 coerce,matrix,packedMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8760--8762 []\T1/pcr/m/n/10 coerce,Matrix,RsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8762--8764 []\T1/pcr/m/n/10 coerce,matrix,RsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8764--8766 []\T1/pcr/m/n/10 coerce,Matrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8766--8768 []\T1/pcr/m/n/10 coerce,matrix,sparseMatrix-method [3893] Overfull \hbox (8.8567pt too wide) in paragraph at lines 8768--8770 []\T1/pcr/m/n/10 coerce,Matrix,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8770--8772 []\T1/pcr/m/n/10 coerce,matrix,sparseVector-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8772--8774 []\T1/pcr/m/n/10 coerce,Matrix,symmetricMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8774--8776 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coerce,matrix.coo,dgCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8792--8794 []\T1/pcr/m/n/10 coerce,matrix.coo,dgTMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8796--8798 []\T1/pcr/m/n/10 coerce,matrix.coo,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8798--8800 []\T1/pcr/m/n/10 coerce,matrix.coo,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8800--8802 []\T1/pcr/m/n/10 coerce,matrix.coo,TsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8802--8804 []\T1/pcr/m/n/10 coerce,matrix.csc,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8804--8806 []\T1/pcr/m/n/10 coerce,matrix.csc,dgCMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8808--8810 []\T1/pcr/m/n/10 coerce,matrix.csc,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8810--8812 []\T1/pcr/m/n/10 coerce,matrix.csc,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8812--8814 []\T1/pcr/m/n/10 coerce,matrix.csc,TsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8814--8816 []\T1/pcr/m/n/10 coerce,matrix.csr,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8816--8818 []\T1/pcr/m/n/10 coerce,matrix.csr,dgCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8818--8820 []\T1/pcr/m/n/10 coerce,matrix.csr,dgRMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8822--8824 []\T1/pcr/m/n/10 coerce,matrix.csr,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8824--8826 []\T1/pcr/m/n/10 coerce,matrix.csr,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8826--8828 []\T1/pcr/m/n/10 coerce,matrix.csr,TsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8828--8830 []\T1/pcr/m/n/10 coerce,nsparseMatrix,indMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8830--8832 []\T1/pcr/m/n/10 coerce,nsparseMatrix,pMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8842--8844 []\T1/pcr/m/n/10 coerce,pBunchKaufman,dtpMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8844--8846 []\T1/pcr/m/n/10 coerce,pCholesky,dtpMatrix-method [3894] Overfull \hbox (50.8567pt too wide) in paragraph at lines 8850--8852 []\T1/pcr/m/n/10 coerce,sparseVector,CsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8852--8854 []\T1/pcr/m/n/10 coerce,sparseVector,denseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8854--8856 []\T1/pcr/m/n/10 coerce,sparseVector,dsparseVector-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8856--8858 []\T1/pcr/m/n/10 coerce,sparseVector,generalMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8858--8860 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determinant,denseLU,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10278--10280 []\T1/pcr/m/n/10 determinant,dgCMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10280--10282 []\T1/pcr/m/n/10 determinant,dgeMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10282--10284 []\T1/pcr/m/n/10 determinant,dgRMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10284--10286 []\T1/pcr/m/n/10 determinant,dgTMatrix,logical-method [3902] Overfull \hbox (56.8567pt too wide) in paragraph at lines 10286--10288 []\T1/pcr/m/n/10 determinant,diagonalMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10288--10290 []\T1/pcr/m/n/10 determinant,dpoMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10290--10292 []\T1/pcr/m/n/10 determinant,dppMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10292--10294 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too wide) in paragraph at lines 10322--10324 []\T1/pcr/m/n/10 determinant,triangularMatrix,logical-method [3903] Overfull \hbox (10.01662pt too wide) in paragraph at lines 10624--10626 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3904] Overfull \hbox (20.8567pt too wide) in paragraph at lines 10689--10691 []\T1/pcr/m/n/10 dimnames,MatrixFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 10689--10691 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (26.8567pt too wide) in paragraph at lines 10697--10699 []\T1/pcr/m/n/10 dimnames<-,generalMatrix,list-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10699--10701 []\T1/pcr/m/n/10 dimnames<-,generalMatrix,NULL-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 10705--10707 []\T1/pcr/m/n/10 dimnames<-,MatrixFactorization,list-method Overfull \hbox (10.01662pt too wide) in 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[]\T1/pcr/m/n/10 kronecker,indMatrix,indMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 14713--14715 []\T1/pcr/m/n/10 kronecker,indMatrix,Matrix-method [3924] Overfull \hbox (80.8567pt too wide) in paragraph at lines 14721--14723 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,diagonalMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 14723--14725 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,Matrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 14725--14727 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,RsparseMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 14727--14729 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,diagonalMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 14729--14731 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,Matrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 14731--14733 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,TsparseMatrix-method [3925] Overfull \hbox (8.8567pt too wide) in paragraph at lines 14942--14944 []\T1/pcr/m/n/10 length,MatrixFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 14942--14944 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3926] [3927] Overfull \hbox (50.8567pt too wide) in paragraph at lines 15566--15568 []\T1/pcr/m/n/10 Logic,CsparseMatrix,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15572--15574 []\T1/pcr/m/n/10 Logic,dMatrix,sparseVector-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 15574--15576 []\T1/pcr/m/n/10 Logic,ldenseMatrix,lsparseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15576--15578 []\T1/pcr/m/n/10 Logic,lgCMatrix,lgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15578--15580 []\T1/pcr/m/n/10 Logic,lgeMatrix,lgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15580--15582 []\T1/pcr/m/n/10 Logic,lgTMatrix,lgTMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15586--15588 []\T1/pcr/m/n/10 Logic,lMatrix,sparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15594--15596 []\T1/pcr/m/n/10 Logic,lsCMatrix,lsCMatrix-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 15596--15598 []\T1/pcr/m/n/10 Logic,lsparseMatrix,ldenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 15598--15600 []\T1/pcr/m/n/10 Logic,lsparseMatrix,lsparseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 15600--15602 []\T1/pcr/m/n/10 Logic,lsparseVector,lsparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15602--15604 []\T1/pcr/m/n/10 Logic,ltCMatrix,ltCMatrix-method [3928] Overfull \hbox (2.8567pt too wide) in paragraph at lines 15608--15610 []\T1/pcr/m/n/10 Logic,ngeMatrix,ngeMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15618--15620 []\T1/pcr/m/n/10 Logic,nMatrix,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15626--15628 []\T1/pcr/m/n/10 Logic,sparseVector,dMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15628--15630 []\T1/pcr/m/n/10 Logic,sparseVector,lMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15630--15632 []\T1/pcr/m/n/10 Logic,sparseVector,nMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 15632--15634 []\T1/pcr/m/n/10 Logic,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 15634--15636 []\T1/pcr/m/n/10 Logic,triangularMatrix,diagonalMatrix-method [3929] Overfull \hbox (10.01662pt too wide) in paragraph at lines 15950--15952 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3930] [3931] [3932] [3933] Overfull \hbox (52.01662pt too wide) in paragraph at lines 16741--16743 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , [3934] [3935] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17357--17359 []\T1/pcr/m/n/10 nonstandardGenericWithTrace-class Overfull \hbox (8.8567pt too wide) in paragraph at lines 17378--17380 []\T1/pcr/m/n/10 norm,denseMatrix,character-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17380--17382 []\T1/pcr/m/n/10 norm,diagonalMatrix,character-method [3936] Overfull \hbox (14.8567pt too wide) in paragraph at lines 17386--17388 []\T1/pcr/m/n/10 norm,sparseMatrix,character-method [3937] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17690--17692 []\T1/pcr/m/n/10 Ops,ddiMatrix,sparseMatrix-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 17692--17694 []\T1/pcr/m/n/10 Ops,diagonalMatrix,triangularMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17712--17714 []\T1/pcr/m/n/10 Ops,dsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17714--17716 []\T1/pcr/m/n/10 Ops,ldenseMatrix,ldenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17732--17734 []\T1/pcr/m/n/10 Ops,ldiMatrix,sparseMatrix-method [3938] Overfull \hbox (38.8567pt too wide) in paragraph at lines 17746--17748 []\T1/pcr/m/n/10 Ops,lsparseMatrix,lsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17748--17750 []\T1/pcr/m/n/10 Ops,lsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17766--17768 []\T1/pcr/m/n/10 Ops,ndenseMatrix,ndenseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17782--17784 []\T1/pcr/m/n/10 Ops,nonStructure,nonStructure-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17786--17788 []\T1/pcr/m/n/10 Ops,nsparseMatrix,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17788--17790 []\T1/pcr/m/n/10 Ops,nsparseMatrix,lsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17790--17792 []\T1/pcr/m/n/10 Ops,nsparseMatrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17804--17806 []\T1/pcr/m/n/10 Ops,sparseMatrix,ddiMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17806--17808 []\T1/pcr/m/n/10 Ops,sparseMatrix,ldiMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17808--17810 []\T1/pcr/m/n/10 Ops,sparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17812--17814 []\T1/pcr/m/n/10 Ops,sparseMatrix,sparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17820--17822 []\T1/pcr/m/n/10 Ops,sparseVector,sparseVector-method [3939] Overfull \hbox (46.01662pt too wide) in paragraph at lines 18036--18038 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ps.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (77.3567pt too wide) in paragraph at lines 18071--18073 []\T1/pcr/m/n/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [3940] [3941] [3942] [3943] [3944] [3945] Overfull \hbox (46.01662pt too wide) in paragraph at lines 19438--19440 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19441--19443 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19443--19445 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19445--19447 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ds.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19447--19449 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.fs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19449--19451 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.gp.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (52.01662pt too wide) in paragraph at lines 19451--19453 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19453--19455 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19455--19457 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.re.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19457--19459 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.soap.film\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19459--19461 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.soap.film\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3946] Overfull \hbox (52.01662pt too wide) in paragraph at lines 19463--19465 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.sos.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19465--19467 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.sz.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19467--19469 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19469--19471 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19471--19473 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19473--19475 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3947] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19826--19828 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3948] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19904--19906 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3949] [3950] [3951] Overfull \hbox (10.01662pt too wide) in paragraph at lines 20370--20372 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 20376--20378 []\T1/pcr/m/n/10 qr.coef,sparseQR,dgeMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20386--20388 []\T1/pcr/m/n/10 qr.fitted,sparseQR,dgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20388--20390 []\T1/pcr/m/n/10 qr.fitted,sparseQR,Matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20390--20392 []\T1/pcr/m/n/10 qr.fitted,sparseQR,matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20392--20394 []\T1/pcr/m/n/10 qr.fitted,sparseQR,vector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20404--20406 []\T1/pcr/m/n/10 qr.qty,sparseQR,dgeMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 20429--20431 []\T1/pcr/m/n/10 qr.resid,sparseQR,dgeMatrix-method [3952] Overfull \hbox (62.8567pt too wide) in paragraph at lines 20566--20568 []\T1/pcr/m/n/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [3953] Overfull \hbox (14.8567pt too wide) in paragraph at lines 20852--20854 []\T1/pcr/m/n/10 rcond,denseMatrix,character-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 20854--20856 []\T1/pcr/m/n/10 rcond,diagonalMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20856--20858 []\T1/pcr/m/n/10 rcond,indMatrix,character-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20860--20862 []\T1/pcr/m/n/10 rcond,sparseMatrix,character-method [3954] [3955] [3956] [3957] [3958] Overfull \hbox (10.01662pt too wide) in paragraph at lines 21901--21903 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3959] [3960] Overfull \hbox (32.8567pt too wide) in paragraph at lines 22269--22271 []\T1/pcr/m/n/10 show,BunchKaufmanFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22269--22271 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 22271--22273 []\T1/pcr/m/n/10 show,CholeskyFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22271--22273 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (26.8567pt too wide) in paragraph at lines 22285--22287 []\T1/pcr/m/n/10 show,genericFunctionWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22287--22289 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (10.01662pt too wide) in paragraph at lines 22289--22291 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (32.8567pt too wide) in paragraph at lines 22293--22295 []\T1/pcr/m/n/10 show,MethodDefinitionWithTrace-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22297--22299 []\T1/pcr/m/n/10 show,MethodWithNextWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22303--22305 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (14.8567pt too wide) in paragraph at lines 22305--22307 []\T1/pcr/m/n/10 show,refClassRepresentation-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22311--22313 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3961] [3962] Overfull \hbox (46.01662pt too wide) in paragraph at lines 22553--22555 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.cr.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22555--22557 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ps.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22558--22560 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.cr.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (5.3567pt too wide) in paragraph at lines 22566--22567 []\T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22578--22580 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 22580--22582 []\T1/pcr/m/n/10 smooth.construct.scad.smooth.spec Overfull \hbox (46.01662pt too wide) in paragraph at lines 22580--22582 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 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This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./fullrefman.tex LaTeX2e <2024-06-01> patch level 2 L3 programming layer <2024-08-30> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2024/02/08 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/latex/amsmath/amsmath.sty For additional information on amsmath, use the `?' option. 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[3] [4] Underfull \hbox (badness 6741) in paragraph at lines 144--150 []\T1/ptm/m/n/10 the small-est pos-i-tive floating-point num-ber []\T1/pcr/m/n/ 10 x []\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 + x != 1[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4805) in paragraph at lines 144--150 \T1/ptm/m/n/10 It equals []\T1/pcr/m/n/10 double.base ^ ulp.digits []\T1/ptm/m/ n/10 if ei-ther []\T1/pcr/m/n/10 double.base []\T1/ptm/m/n/10 is Underfull \hbox (badness 4316) in paragraph at lines 144--150 \T1/ptm/m/n/10 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0; oth -er-wise, it is []\T1/pcr/m/n/10 (double.base ^ Underfull \hbox (badness 4454) in paragraph at lines 150--158 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/pcr/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/pcr/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 1028) in paragraph at lines 150--158 \T1/ptm/m/n/10 equals []\T1/pcr/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/pcr/m/n/10 double.base Underfull \hbox (badness 2980) in paragraph at lines 150--158 []\T1/ptm/m/n/10 is 2 or []\T1/pcr/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/pcr/m/n/10 (double.base Underfull \hbox (badness 1394) in paragraph at lines 150--158 \T1/pcr/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/p cr/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As [5] Underfull \hbox (badness 1142) in paragraph at lines 220--225 []\T1/ptm/m/n/10 the num-ber of \T1/ptm/m/it/10 bytes \T1/ptm/m/n/10 in the C [ ]\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 type: a 64-bit []\T1/pcr/m/n/10 time_t []\T1/ptm/m/n/10 (value Underfull \hbox (badness 1478) in paragraph at lines 220--225 []\T1/pcr/m/n/10 8[]\T1/ptm/m/n/10 ) is much pre-ferred these days. Note that t his is the type used by Underfull \hbox (badness 1484) in paragraph at lines 227--232 []\T1/ptm/m/n/10 introduced in \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.0.0. When [][] []\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 is Underfull \hbox (badness 3009) in paragraph at lines 236--248 []\T1/pcr/m/n/10 *.exponent[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 *.min.exp[]\T1/p tm/m/n/10 , and []\T1/pcr/m/n/10 *.max.exp[]\T1/ptm/m/n/10 , com-puted en-tirel y anal-o-gously to their [6] Underfull \hbox (badness 5652) in paragraph at lines 256--261 []\T1/ptm/m/n/10 Note that it is le-gal for a plat-form to have a `[]\T1/pcr/m/ n/10 long double[]\T1/ptm/m/n/10 ' C type which is Underfull \hbox (badness 6691) in paragraph at lines 256--261 \T1/ptm/m/n/10 iden-ti-cal to the `[]\T1/pcr/m/n/10 double[]\T1/ptm/m/n/10 ' ty pe --- this hap-pens on ARM CPUs. In that case Underfull \hbox (badness 1521) in paragraph at lines 256--261 [][][]\T1/pcr/m/n/10 capabilities[][][]("long.double") []\T1/ptm/m/n/10 will be false but on ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 prior to 4.0.4, [7] Underfull \hbox (badness 10000) in paragraph at lines 376--380 [][][]\T1/pcr/m/n/10 R.version[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 Sys.info[][][] []\T1/ptm/m/n/10 give more de-tails about the OS. In par-tic-u-l ar, [8] [9] [10] Underfull \hbox (badness 1072) in paragraph at lines 576--582 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [11] Overfull \hbox (4.38043pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, v alue = TRUE)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 646--646 []\T1/pcr/m/n/9 agrep("laysy", c("1 lazy", "1", "1 LAZY"), max.distance = 2, i gnore.case = TRUE)[] [12] [13] (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1pcr.fd) Overfull \hbox (60.78088pt too wide) in paragraph at lines 778--778 [] \T1/pcr/m/n/10 ..., check.attributes = TRUE, check.class = TRUE, g iveErr = FALSE)[] [14] [15] [16] Overfull \hbox (4.38043pt too wide) in paragraph at lines 938--938 []\T1/pcr/m/n/9 all.equal(tan(d45), one, tolerance = 0, scale = 1+(-2:2)/1e9) # "absolute"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 959--959 []\T1/pcr/m/n/9 mtext(paste("mean(all.equal(x1, x2*(1 + eps_k))) {100 x} Mean rel.diff.=",[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 987--987 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE)# "target is bar, current is numeric"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 988--988 []\T1/pcr/m/n/9 all.equal(two^20, 2^20, check.attributes = FALSE, check.class = FALSE) # TRUE[] Underfull \vbox (badness 10000) has occurred while \output is active [17] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1013--1013 []\T1/pcr/m/n/10 all.names(expr, functions = TRUE, max.names = -1L, unique = F ALSE) [18] [19] [20] [21] [22] [23] [24] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [25{/usr/share/texlive/texmf-dist/fonts/enc/dvips/cm-super/cm-super-ts1.enc}] Underfull \hbox (badness 1221) in paragraph at lines 1553--1560 []\T1/ptm/m/n/10 in-di-cates in-te-ger di-vi-sion, where \T1/phv/m/n/10 R \T1/p tm/m/n/10 uses ``floored'' in-te-ger di-vi-sion, i.e., []\T1/pcr/m/n/10 q <- x %/% y := [26] Underfull \hbox (badness 10000) in paragraph at lines 1642--1647 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [27] [28] [29] [30] Underfull \vbox (badness 10000) has occurred while \output is active [31] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1987--1987 [] \T1/pcr/m/n/10 cut.names = FALSE, col.names = names(x), fix.em pty.names = TRUE,[] Underfull \hbox (badness 1303) in paragraph at lines 2019--2022 []\T1/ptm/m/n/10 logical or in-te-ger; in-di-cat-ing if col-umn names with more than 256 (or [32] [33] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 names(dL <- as.data.frame(L)) # "NA."[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 names(dL1 <- as.data.frame(L, col.names = names(L))) # "NA."[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 names(dL1.<- as.data.frame(L, check.name s=FALSE)) # "NA"[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/9 names(dL2 <- as.data.frame(L, col.names = names(L), check.name s=FALSE)) # NA[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2116--2116 []\T1/pcr/m/n/9 names(dLn <- as.data.frame(L, new.names = TRUE, check.name s=FALSE)) # NA[] [34] [35] [36] Overfull \hbox (112.38031pt too wide) in paragraph at lines 2306--2306 []\T1/pcr/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] Underfull \hbox (badness 10000) in paragraph at lines 2344--2346 []\T1/ptm/m/n/10 If [][][]\T1/pcr/m/n/10 is.object[][][](x) []\T1/ptm/m/n/10 is true and it has a [][][]\T1/pcr/m/n/10 class[][][] []\T1/ptm/m/n/10 for which an [37] [38] [39] [40] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2620--2620 []\T1/pcr/m/n/9 (now <- as.POSIXlt(Sys.time())) # the current datetime, as cla ss "POSIXlt"[] [41] Overfull \hbox (121.828pt too wide) in paragraph at lines 2660--2660 []\T1/pcr/m/n/9 if(file.exists(tab)) { # typically on Windows; on Linux when \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 configure --with-internal-tzcode\TS1/cmtt/m/n/9 `[] [42] [43] Underfull \hbox (badness 1107) in paragraph at lines 2828--2830 []\T1/ptm/m/n/10 There are no re-stric-tions on the name given as []\T1/pcr/m/n /10 x[]\T1/ptm/m/n/10 : it can be a non-syntactic name (see [44] [45] [46] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2997--2997 []\T1/pcr/m/n/10 attach(what, pos = 2L, name = deparse1(substitute(what), back tick=FALSE), [47] [48] [49] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3215--3215 []\T1/pcr/m/n/9 try( attr(S, "foo") <- NA ) # no longer possible to mutate pri mitive functions[] [50] [51] [52] Underfull \hbox (badness 10000) in paragraph at lines 3472--3475 []\T1/pcr/m/n/10 unCfillPOSIXlt(x) []\T1/ptm/m/n/10 is a fast [][]prim-i-tive[] [][] ver-sion of []\T1/pcr/m/n/10 balancePOSIXlt(x, [53] [54] [55] [56] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3778--3778 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", nus), col = nus + 2, lwd = 1, bty="n")[] [57] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3809--3809 []\T1/pcr/m/n/9 plot(range(x0), c(1e-40, 1), log = "xy", xlab = "x", ylab = "" , type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3810--3810 [] \T1/pcr/m/n/9 main = "Bessel Functions J_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3817--3817 []\T1/pcr/m/n/9 plot(range(x0), 10^c(-100, 80), log = "xy", xlab = "x", ylab = "", type = "n",[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3818--3818 [] \T1/pcr/m/n/9 main = "Bessel Functions K_nu(x) near 0\n log - log sc ale") ; axis(2, at=1)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3821--3821 []\T1/pcr/m/n/9 legend("topright", legend = paste("nu=", paste(nus, nus + 0.5, sep = ", ")),[] Underfull \vbox (badness 10000) has occurred while \output is active [58] [59] [60] [61] [62] [63] [64] Underfull \hbox (badness 10000) in paragraph at lines 4268--4270 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [65] [66] [67] [68] [69] [70] [71] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4754--4754 []\T1/pcr/m/n/9 L <- as.list(E <- setNames( , c("if", "for", "while", "repeat" , "function",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4755--4755 [] \T1/pcr/m/n/9 "(", "{", "[", "<-", "<<-", "->", "=")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4756--4756 []\T1/pcr/m/n/9 for(i in seq_along(L)) L[[i]] <- call(E[[i]]) # instead of lap ply(E, call) ..[] Overfull \hbox (73.22806pt too wide) in paragraph at lines 4757--4757 []\T1/pcr/m/n/9 list_ <- function (...) \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 names<- \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 (list(...), vapply(sys.call()[-1L], as.character , ""))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4758--4758 []\T1/pcr/m/n/9 (Tab <- noquote(sapply(list_(is.call, typeof, class, mode), \( F) sapply(L, F))))[] [72] Underfull \hbox (badness 4927) in paragraph at lines 4826--4830 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the name of a C func-tion, or an ob-ject Underfull \hbox (badness 2012) in paragraph at lines 4826--4830 \T1/ptm/m/n/10 of class []\T1/pcr/m/n/10 "[][]NativeSymbolInfo[][][]"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "[][]RegisteredNativeSymbol[][][]" []\T1/ptm/m/n/10 o r [73] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4910--4910 [] \T1/pcr/m/n/10 Xchk = any(nas %in% c("X11", "jpeg", "png", "tif f")))[] [74] Underfull \hbox (badness 4595) in paragraph at lines 4984--4987 []\T1/ptm/m/n/10 is ICU avail-able for col-la-tion? See the help on [][]Com-par -i-son[][][] and [75] [76] [77] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5150--5150 []\T1/pcr/m/n/9 cat(paste(letters, 100* 1:26), fill = TRUE, labels = paste0("{ ", 1:10, "}:"))[] Underfull \hbox (badness 1199) in paragraph at lines 5179--5185 []\T1/ptm/m/n/10 (generalized) vec-tors or ma-tri-ces. These can be given as na med ar-gu- Underfull \hbox (badness 2573) in paragraph at lines 5191--5194 []\T1/ptm/m/n/10 (only for data frame method:) log-i-cal in-di-cat-ing if uniqu e and valid [78] [79] [80] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5364--5364 []\T1/pcr/m/n/9 rbind(1:4, c = 2, "a++" = 10, dd, deparse.level = 1) # 3 rowna mes (default)[] [81] [82] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5538--5538 []\T1/pcr/m/n/9 as.character(list(A = "Abc", xy = c("x", "y"))) # "Abc" "c(\" x\", \"y\")"[] [83] Underfull \hbox (badness 2521) in paragraph at lines 5626--5628 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [84] [85] [86] [87] [88] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5920--5920 []\T1/pcr/m/n/9 ## another example, this time with positive, negative, and zer o eigenvalues[] [89] [90] [91] Underfull \hbox (badness 1270) in paragraph at lines 6145--6153 []\T1/ptm/m/n/10 When a generic func-tion []\T1/pcr/m/n/10 fun []\T1/ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute []\T1/pcr/m/n/10 c("first", [92] [93] [94] [95] [96] [97] [98] [99] Underfull \hbox (badness 1796) in paragraph at lines 6726--6734 []\T1/ptm/m/n/10 Collation of char-ac-ter strings is a com-plex topic. For an i n-tro-duc-tion see [][]$\T1/pcr/m/n/10 https : / / [100] [101] [102] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6933--6933 []\T1/pcr/m/n/9 NAs <- vapply(list(NA, NA_integer_, NA_real_, NA_character_, N A_complex_),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6943--6943 []\T1/pcr/m/n/9 ## The exact result of this *depends* on the platform, compile r, math-library:[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 6945--6945 []\T1/pcr/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [103] [104] Underfull \hbox (badness 1205) in paragraph at lines 7087--7092 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 errorCondition []\T1/ptm/m/n/10 can be used to con-struct er-ror con-di-tions of a par-tic-u- [105] Underfull \hbox (badness 1635) in paragraph at lines 7151--7154 []\T1/ptm/m/n/10 User in-ter-rupts sig-nal a con-di-tion of class []\T1/pcr/m/n /10 interrupt []\T1/ptm/m/n/10 that in-her-its di-rectly from class Underfull \hbox (badness 3009) in paragraph at lines 7155--7158 []\T1/ptm/m/n/10 Restarts are used for es-tab-lish-ing re-cov-ery pro-to-cols. They can be es-tab-lished us-ing [106] Underfull \hbox (badness 1308) in paragraph at lines 7198--7206 []\T1/ptm/m/n/10 One ad-di-tional field that can be spec-i-fied for a restart i s []\T1/pcr/m/n/10 interactive[]\T1/ptm/m/n/10 . This should [107] [108] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7369--7369 []\T1/pcr/m/n/10 zstdfile(description, open = "", encoding = getOption("encodi ng"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 7372--7372 []\T1/pcr/m/n/10 unz(description, filename, open = "", encoding = getOption("e ncoding"))[] [109] Underfull \hbox (badness 4505) in paragraph at lines 7424--7427 []\T1/ptm/m/n/10 character string, par-tially matched to []\T1/pcr/m/n/10 c("de fault", "internal", [110] Underfull \hbox (badness 10000) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 file[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pipe[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fifo[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 url[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bzfile[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 xzfile[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 zstdfile[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 unz[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1092) in paragraph at lines 7560--7565 []\T1/pcr/m/n/10 socketConnection[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 socketAcce pt []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 serverSocket []\T1/ptm/m/n/10 re-turn a con-nec-tion ob-ject [111] [112] [113] [114] Underfull \hbox (badness 10000) in paragraph at lines 7823--7825 []\T1/ptm/m/n/10 It may be pos-si-ble to de-duce the cur-rent na-tive en-cod-in g from Underfull \hbox (badness 3302) in paragraph at lines 7865--7872 []\T1/pcr/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/pcr/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/pcr/m/n/10 "r" []\T1/ptm/m/n /10 only. This [115] [116] [117] Underfull \vbox (badness 10000) has occurred while \output is active [118] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8115--8115 []\T1/pcr/m/n/9 A <- read.table(con <- file("students", encoding = "UCS-2LE")) ; close(con)[] [119] [120] [121] [122] [123] Underfull \hbox (badness 10000) in paragraph at lines 8477--8479 []\T1/ptm/m/n/10 The cur-rent eval-u-a-tion depth (in-clud-ing two calls for th e call to [124] [125] [126] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8637--8637 []\T1/pcr/m/n/9 curlGetHeaders("http://bugs.r-project.org") ## this redirect s to https://[] [127] [128] [129] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8872--8872 []\T1/pcr/m/n/9 tm <- seq(as.POSIXct("2012-06-01 06:00"), by = "6 hours", leng th.out = 24)[] [130] [131] Underfull \hbox (badness 10000) in paragraph at lines 8988--8998 []\T1/pcr/m/n/10 data.frame []\T1/ptm/m/n/10 con-verts each of its ar-gu-ments to a data frame by call-ing Underfull \hbox (badness 1975) in paragraph at lines 8988--8998 [][][]\T1/pcr/m/n/10 as.data.frame[][][](optional = TRUE)[]\T1/ptm/m/n/10 . As that is a generic func-tion, meth-ods can be [132] [133] [134] Overfull \hbox (20.58041pt too wide) in paragraph at lines 9156--9156 [] \T1/pcr/m/n/9 c = seq(as.Date("2004-01-01"), by = "week", l ength.out = 3),[] [135] [136] [137] [138] Underfull \hbox (badness 10000) in paragraph at lines 9501--9513 \T1/pcr/m/n/10 23:59:59", format = "%Y-%m-%d %H:%M:%S", tz = "UTC") []\T1/ptm/m /n/10 may give []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 , and [139] [140] [141] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9728--9728 []\T1/pcr/m/n/9 ## Omitting "tzone" attrib, numeric matrix w/ 10 columns (27 x 10, currently) :[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 9730--9730 []\T1/pcr/m/n/9 stopifnot(identical(ncol(leapm), 10L), is.numeric(leapm)) # wa s character in R <= 4.6.0[] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10158--10158 []\T1/pcr/m/n/9 ### Promises in an environment [for advanced users]: -------- -------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10160--10160 []\T1/pcr/m/n/9 e <- (function(x, y = 1, z) environment())(cos, "y", {cat(" HO !\n"); pi+2})[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10188--10188 [] \T1/pcr/m/n/10 backtick = mode(expr) %in% c("call", "expression", "( ", "function"),[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 10189--10189 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "sh owAttributes"),[] [149] [150] Underfull \hbox (badness 5403) in paragraph at lines 10317--10319 []\T1/pcr/m/n/10 ..deparseOpts []\T1/ptm/m/n/10 is the [][][]\T1/pcr/m/n/10 cha racter[][][] []\T1/ptm/m/n/10 vec-tor of pos-si-ble de-pars-ing op-tions used b y Underfull \hbox (badness 6063) in paragraph at lines 10336--10338 []\T1/ptm/m/n/10 Surround un-eval-u-ated ex-pres-sions, but not [][][]\T1/pcr/m /n/10 formula[][][][]\T1/ptm/m/n/10 s, with [151] [152] [153] Underfull \hbox (badness 1603) in paragraph at lines 10566--10569 []\T1/ptm/m/n/10 a nu-meric value. The mod-u-lus (ab-so-lute value) of the de-t er-mi-nant if [154] [155] [156] [157] [158] [159] [160] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11042--11042 [] \T1/pcr/m/n/10 z <- as.POSIXct(c("2016-12-31 23:59:59", "2017-01-01 00:0 0:01"))[] [161] [162] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11161--11161 []\T1/pcr/m/n/10 provideDimnames(x, sep = "", base = list(. = LETTERS), unique = TRUE,[] [163] Underfull \hbox (badness 1917) in paragraph at lines 11212--11217 []\T1/pcr/m/n/10 provideDimnames(x) []\T1/ptm/m/n/10 pro-vides []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 where ``miss-ing'', such that its re-sult has Overfull \hbox (36.7804pt too wide) in paragraph at lines 11268--11268 []\T1/pcr/m/n/9 strd(provideDimnames(N, base= list(letters[-(1:9)], tail(LETTE RS)))) # recycling[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11269--11269 []\T1/pcr/m/n/9 strd(provideDimnames(A, base= list(c("AA","BB")))) # recycling on both levels[] [164] [165] Underfull \hbox (badness 1168) in paragraph at lines 11378--11383 []\T1/ptm/m/n/10 code anal-y-sis as a di-rec-tive to sup-press check-ing of []\ T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . Cur-rently this is only used by [166] [167] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11478--11478 []\T1/pcr/m/n/9 ## From R 4.1.0 to 4.1.2, ...names() sometimes did not match n ames(list(...));[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 11480--11480 []\T1/pcr/m/n/9 chk.n2 <- function(...) stopifnot(identical(print(...names()), names(list(...))))[] [168] Underfull \hbox (badness 2828) in paragraph at lines 11600--11605 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ 754-[]19 85$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 org / wiki / IEEE _ 754-[]2008$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr /m/n/10 https : / / en . wikipedia . org / wiki / IEEE _ Underfull \hbox (badness 10000) in paragraph at lines 11600--11605 \T1/pcr/m/n/10 754-[]2019$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Double _ precision$[][]\T1/ptm/m/n/10 , [][]$\T1/ pcr/m/n/10 https : [169] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11631--11631 [] \T1/pcr/m/n/10 control = c("keepNA", "keepInteger", "niceNames", "showA ttributes"))[] [170] Overfull \hbox (15.18042pt too wide) in paragraph at lines 11706--11706 []\T1/pcr/m/n/9 ## Write an ASCII version of the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 base\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 function mean() to our temp file, ..[] [171] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11783--11783 []\T1/pcr/m/n/9 drop(1:3 %*% 2:4) # scalar product - w/o drop(.), would retur n 1x1 matrix[] [172] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11864--11864 []\T1/pcr/m/n/9 aq <- transform(airquality, Month = factor(Month, labels = mon th.abb[5:9])) [173] [174] [175] Underfull \hbox (badness 6396) in paragraph at lines 12064--12072 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 10000) in paragraph at lines 12073--12075 []\T1/pcr/m/n/10 duplicated(x, fromLast = TRUE) []\T1/ptm/m/n/10 is equiv-a-len t to but faster than [176] [177] [178] Underfull \hbox (badness 10000) in paragraph at lines 12291--12294 []\T1/ptm/m/n/10 Do not use []\T1/pcr/m/n/10 dyn.unload []\T1/ptm/m/n/10 on a D LL loaded by [][][]\T1/pcr/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 : use [179] [180] [181] [182] [183] [184] [185] Underfull \hbox (badness 2744) in paragraph at lines 12740--12742 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see Overfull \hbox (20.58041pt too wide) in paragraph at lines 12763--12763 []\T1/pcr/m/n/9 Encoding(x.) # "unknown" (UTF-8 loc.) | "latin1" (8859-1/CP-12 52 loc.) | ....[] [186] [187] [188] Underfull \hbox (badness 5288) in paragraph at lines 13017--13019 []\T1/ptm/m/n/10 The path to the de-fault browser. Used to set the de-fault val ue of Underfull \hbox (badness 3039) in paragraph at lines 13027--13032 []\T1/ptm/m/n/10 Optional. The path to Ghostscript, used by [][][]\T1/pcr/m/n/1 0 dev2bitmap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bitmap[][][] []\T1/pt m/m/n/10 and [189] Underfull \hbox (badness 10000) in paragraph at lines 13084--13087 []\T1/ptm/m/n/10 The path to HTML []\T1/pcr/m/n/10 tidy[]\T1/ptm/m/n/10 . Used by []\T1/pcr/m/n/10 R CMD check []\T1/ptm/m/n/10 if Underfull \hbox (badness 10000) in paragraph at lines 13102--13104 []\T1/ptm/m/n/10 (and more). Op-tional. Set-tings for [190] [191] [192] [193] Underfull \hbox (badness 10000) in paragraph at lines 13353--13355 []\T1/ptm/m/n/10 a frame in the call-ing list. Equiv-a-lent to giv-ing []\T1/pc r/m/n/10 where []\T1/ptm/m/n/10 as Underfull \hbox (badness 5970) in paragraph at lines 13395--13397 []\T1/pcr/m/n/10 get0(): []\T1/ptm/m/n/10 The object---as from [][][]\T1/pcr/m/ n/10 get[][][](x, *)[]\T1/ptm/m/n/10 --- if []\T1/pcr/m/n/10 exists(x, *) []\T1 /ptm/m/n/10 is true, oth-er-wise [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14223--14223 []\T1/pcr/m/n/9 ## "avector" := vector that keeps attributes. Could provide a constructor[] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14967--14969 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see Underfull \hbox (badness 1490) in paragraph at lines 15002--15005 []\T1/ptm/m/n/10 Junction points and sym-bolic links are fol-lowed, so in-for-m a-tion is given about the [216] [217] Underfull \hbox (badness 2573) in paragraph at lines 15139--15141 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/pcr /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/pcr/m/n/10 fsep = [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 15300--15302 []\T1/ptm/m/n/10 logical: should file dates be pre-served where pos-si-ble? See [220] [221] Underfull \hbox (badness 10000) in paragraph at lines 15421--15425 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15432--15435 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . Overfull \hbox (47.58038pt too wide) in paragraph at lines 15453--15453 [] \T1/pcr/m/n/9 # |--> (TRUE,FALSE) : ok for A but not B as it exists already[] [222] Overfull \hbox (30.78088pt too wide) in paragraph at lines 15479--15479 []\T1/pcr/m/n/10 dir.create(path, showWarnings = TRUE, recursive = FALSE, mode = "0777")[] [223] Underfull \hbox (badness 10000) in paragraph at lines 15575--15578 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.exists[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 unlink[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 basename[][][][]\T1/ ptm/m/n/10 , Overfull \hbox (9.78043pt too wide) in paragraph at lines 15585--15585 []\T1/pcr/m/n/9 f <- list.files(".", all.files = TRUE, full.names = TRUE, recu rsive = TRUE)[] [224] Underfull \hbox (badness 10000) in paragraph at lines 15651--15654 []\T1/pcr/m/n/10 packageNotFoundError []\T1/ptm/m/n/10 cre-ates an er-ror con-d i-tion ob-ject of class Overfull \hbox (20.58041pt too wide) in paragraph at lines 15668--15668 []\T1/pcr/m/n/9 ## will not give an error, maybe a warning about *all* locatio ns it is found:[] [225] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15697--15697 []\T1/pcr/m/n/10 findInterval(x, vec, rightmost.closed = FALSE, all.inside = F ALSE, Overfull \hbox (6.78088pt too wide) in paragraph at lines 15698--15698 [] \T1/pcr/m/n/10 left.open = FALSE, checkSorted = TRUE, checkNA = TRUE)[] [226] Underfull \hbox (badness 3965) in paragraph at lines 15736--15740 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] Overfull \hbox (0.78088pt too wide) in paragraph at lines 15906--15906 [] \T1/pcr/m/n/10 .C(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING) Overfull \hbox (0.78088pt too wide) in paragraph at lines 15907--15907 [] \T1/pcr/m/n/10 .Fortran(.NAME, ..., NAOK = FALSE, DUP = TRUE, PACKAGE, ENCO DING)[] [229] [230] [231] [232] Overfull \hbox (63.78036pt too wide) in paragraph at lines 16150--16150 []\T1/pcr/m/n/9 ## formals returns a pairlist. Arguments with no default have type symbol (aka name).[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16153--16153 []\T1/pcr/m/n/9 ## formals returns NULL for primitive functions. Use it in co mbination with[] [233] Underfull \hbox (badness 1331) in paragraph at lines 16242--16246 []\T1/ptm/m/n/10 either a log-i-cal spec-i-fy-ing whether el-e-ments of a real or com-plex vec- Underfull \hbox (badness 2012) in paragraph at lines 16242--16246 \T1/ptm/m/n/10 tor should be en-coded in sci-en-tific for-mat, or an in-te-ger penalty (see Underfull \hbox (badness 10000) in paragraph at lines 16249--16249 []\T1/pcr/m/n/10 big.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 big.interval[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 small.mark[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sma ll.interval[]\T1/ptm/m/n/10 , [234] Underfull \hbox (badness 1152) in paragraph at lines 16319--16327 \T1/ptm/m/n/10 stead of []\T1/pcr/m/n/10 format.default(x, ...) []\T1/ptm/m/n/1 0 in \T1/phv/m/n/10 R \T1/ptm/m/n/10 <= 4.5.z) to each el-e-ment of the list (a f-ter Underfull \hbox (badness 6944) in paragraph at lines 16340--16343 [][][]\T1/pcr/m/n/10 formatC[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 paste [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 sprintf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p rint[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 prettyNum[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 toString[][][][]\T1/ptm/m/n/10 , [235] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16370--16370 []\T1/pcr/m/n/9 z <- list(a = letters[1:3], b = (-pi+0i)^((-2:2)/2), c = c(1,1 0,100,1000),[] [236] [237] Underfull \hbox (badness 10000) in paragraph at lines 16508--16510 []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 is used for ``pret-ti-fy-ing'' (p os-si-bly for-mat-ted) num-bers, also in Overfull \hbox (48.78088pt too wide) in paragraph at lines 16528--16528 [] \T1/pcr/m/n/10 decimal.mark = getOption("OutDec"), input.d.mark = decimal.mark,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16534--16534 []\T1/pcr/m/n/10 .format.zeros(x, zero.print, nx = suppressWarnings(as.numeric (x)),[] [238] Underfull \hbox (badness 2790) in paragraph at lines 16541--16544 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/pcr/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for Underfull \hbox (badness 1024) in paragraph at lines 16572--16579 []\T1/pcr/m/n/10 "f" []\T1/ptm/m/n/10 gives num-bers in the usual []\T1/pcr/m/n /10 xxx.xxx []\T1/ptm/m/n/10 for-mat; []\T1/pcr/m/n/10 "e" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "E" []\T1/ptm/m/n/10 give [239] Underfull \hbox (badness 10000) in paragraph at lines 16648--16650 []\T1/ptm/m/n/10 This works via []\T1/pcr/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/pcr/m/n/10 .format.zeros(*, Underfull \hbox (badness 10000) in paragraph at lines 16670--16675 []\T1/ptm/m/n/10 For num-bers, []\T1/pcr/m/n/10 formatC() []\T1/ptm/m/n/10 call s []\T1/pcr/m/n/10 prettyNum() []\T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 2426) in paragraph at lines 16676--16678 []\T1/ptm/m/n/10 If you set []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 it over-ri des the set-ting of []\T1/pcr/m/n/10 mode[]\T1/ptm/m/n/10 , so []\T1/pcr/m/n/10 formatC(123.45, mode = [240] Underfull \hbox (badness 10000) in paragraph at lines 16687--16695 []\T1/pcr/m/n/10 prettyNum []\T1/ptm/m/n/10 is the util-ity func-tion for pret- ti-fy-ing []\T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 x []\T1/ptm/m/n /10 can be com-plex (or [241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16796--16796 []\T1/pcr/m/n/9 fc <- formatC(1.234 + 10^(0:8), format = "fg", width = 11, big .mark = "\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ")[] Underfull \vbox (badness 10000) has occurred while \output is active [242] Overfull \hbox (42.18039pt too wide) in paragraph at lines 16818--16818 []\T1/pcr/m/n/9 doLC <- FALSE # <= R warns, so change to TRUE manually if you want see the effect[] [243] [244] Overfull \hbox (24.78088pt too wide) in paragraph at lines 17005--17005 []\T1/pcr/m/n/10 Reduce(f, x, init, right = FALSE, accumulate = FALSE, simplif y = TRUE) [245] [246] [247] [248] [249] [250] [251] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17491--17491 []\T1/pcr/m/n/9 ## very low-level: get()ing the "missing argument", e.g., insi de browser()[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17502--17502 [] \T1/pcr/m/n/9 is.symbol(E$m) # => valid argument to get(), and *also* ge ts \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 missing arg\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] [252] [253] [254] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17684--17684 []\T1/pcr/m/n/9 utils::tail(getLoadedDLLs(), 2) # the last 2 loaded ones, stil l a DLLInfoList[] [255] Underfull \hbox (badness 2418) in paragraph at lines 17793--17797 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/pcr/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [256] Underfull \hbox (badness 6510) in paragraph at lines 17800--17803 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 name []\T1/ptm/m/n/10 con-tains only one s ym-bol name and []\T1/pcr/m/n/10 unlist []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TR UE[]\T1/ptm/m/n/10 , then the sin-gle Underfull \hbox (badness 2326) in paragraph at lines 17837--17844 [][][]\T1/pcr/m/n/10 getDLLRegisteredRoutines[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 is.loaded[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .C[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Fortran[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 .External[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 .Call[][][][] \T1/ptm/m/n/10 , [257] [258] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17998--17998 []\T1/pcr/m/n/9 ## Not run: ## for translation, those strings should appear in R-pkg.pot as[] [259] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18019--18019 []\T1/pcr/m/n/9 if(is.na(thisLang) || !nzchar(thisLang)) thisLang <- "en" # "f actory" default[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18022--18022 []\T1/pcr/m/n/9 gettext(enT, domain="R-stats")# "leeres Modell angegeben" (if translation works)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18052--18052 []\T1/pcr/m/n/9 ## Here, we reset to the *original* setting before the full ex ample started:[] [260] [261] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18190--18190 []\T1/pcr/m/n/10 grep(pattern, x, ignore.case = FALSE, perl = FALSE, value = F ALSE, [262] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18193--18193 []\T1/pcr/m/n/10 grepv(pattern, x, ignore.case = FALSE, perl = FALSE, value = TRUE,[] Underfull \hbox (badness 1867) in paragraph at lines 18221--18228 []\T1/ptm/m/n/10 character string con-tain-ing a [][]reg-u-lar ex-pres-sion[][] [] (or char-ac-ter string for [263] [264] [265] [266] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18552--18552 [] \T1/pcr/m/n/9 nms <- nms[is.na(match(nms, c("F","T")))] # <-- work around "checking hack"[] [267] Overfull \hbox (36.7804pt too wide) in paragraph at lines 18581--18581 []\T1/pcr/m/n/9 name.rex <- "(?[[:upper:]][[:lower:]]+) (?[[:uppe r:]][[:lower:]]+)"[] Underfull \vbox (badness 10000) has occurred while \output is active [268] Overfull \hbox (0.78088pt too wide) in paragraph at lines 18637--18637 [] \T1/pcr/m/n/10 value = FALSE, fixed = FALSE, all = FALSE, invert = F ALSE)[] [269] [270] [271] [272] [273] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19020--19020 []\T1/pcr/m/n/9 (ii <- grouping(x <- c(1, 1, 3:1, 1:4, 3), y <- c(9, 9:1), z < - c(2, 1:9))) [274] Overfull \hbox (4.38043pt too wide) in paragraph at lines 19085--19085 []\T1/pcr/m/n/9 z <- gzcon(url("https://www.stats.ox.ac.uk/pub/datasets/csb/ch 12.dat.gz"))[] [275] [276] [277] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19299--19299 []\T1/pcr/m/n/10 iconv(x, from = "", to = "", sub = NA, mark = TRUE, toRaw = F ALSE) [278] [279] Underfull \hbox (badness 1360) in paragraph at lines 19462--19466 []\T1/ptm/m/n/10 The most portable name for the ISO 8859-15 en-cod-ing, com-mon ly known as `Latin 9', Underfull \hbox (badness 1210) in paragraph at lines 19462--19466 \T1/ptm/m/n/10 is []\T1/pcr/m/n/10 "iso885915"[]\T1/ptm/m/n/10 : most plat-form s sup-port both []\T1/pcr/m/n/10 "latin-9" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/1 0 "latin9" []\T1/ptm/m/n/10 but GNU [280] [281] [282] Underfull \hbox (badness 1163) in paragraph at lines 19682--19684 []\T1/ptm/m/n/10 The ICU user guide chap-ter on col-la-tion ([][]$\T1/pcr/m/n/1 0 https : / / unicode-[]org . github . io / icu / Overfull \hbox (9.78043pt too wide) in paragraph at lines 19690--19690 []\T1/pcr/m/n/9 ## As we don\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 t know the current s ettings, we can only reset to the default.[] [283] Overfull \hbox (24.78088pt too wide) in paragraph at lines 19720--19720 []\T1/pcr/m/n/10 identical(x, y, num.eq = TRUE, single.NA = TRUE, attrib.as.se t = TRUE, [284] Overfull \hbox (30.78088pt too wide) in paragraph at lines 19814--19814 [] \T1/pcr/m/n/10 num.eq = FALSE, single.NA = FALSE, attrib.as.se t = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 19815--19815 [] \T1/pcr/m/n/10 ignore.bytecode = FALSE, ignore.environment = F ALSE,[] [285] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19869--19869 []\T1/pcr/m/n/9 ### For functions ("closure"s): ------------------------------ ----------------[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 19875--19875 []\T1/pcr/m/n/9 identical(f, g) # TRUE, as bytecode is ignored by default[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 19878--19878 []\T1/pcr/m/n/9 ## GLM families contain several functions, some of which share an environment:[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19884--19884 []\T1/pcr/m/n/9 op <- options(keep.source = TRUE) # and so, these have differi ng "srcref" :[] [286] [287] Overfull \hbox (4.38043pt too wide) in paragraph at lines 20012--20012 []\T1/pcr/m/n/9 ## This is a (not atypical) case where it is better *not* to u se ifelse(),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20020--20020 []\T1/pcr/m/n/9 ## example of different return modes (and \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 test\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 alone determining length):[] [288] [289] [290] Underfull \hbox (badness 10000) in paragraph at lines 20227--20229 []\T1/ptm/m/n/10 how some er-rors are han-dled and re-ported, e.g. see [][][]\T 1/pcr/m/n/10 stop[][][] []\T1/ptm/m/n/10 and [291] [292] Underfull \hbox (badness 2057) in paragraph at lines 20330--20356 [][][]\T1/pcr/m/n/10 as.character[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.complex[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.double[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 as.integer[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 as.logical[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 as.raw[][][][] \T1/ptm/m/n/10 , [293] [294] Underfull \hbox (badness 10000) in paragraph at lines 20528--20535 \T1/ptm/m/n/10 Also avail-able at [][]$\T1/pcr/m/n/10 https : / / docs . oracle . com / cd / E19957-[]01 / 806-[]3568 / ncg _ [295] [296] [297] Underfull \hbox (badness 4699) in paragraph at lines 20728--20731 []\T1/pcr/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , [298] [299] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20862--20862 []\T1/pcr/m/n/10 ISOdate(year, month, day, hour = 12, min = 0, sec = 0, tz = " GMT")[] [300] [301] Underfull \hbox (badness 4739) in paragraph at lines 20999--21001 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [302] Overfull \hbox (36.7804pt too wide) in paragraph at lines 21054--21054 []\T1/pcr/m/n/9 isSymmetric(D3) # FALSE (as row and co lumn names differ)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21055--21055 []\T1/pcr/m/n/9 isSymmetric(D3, check.attributes=FALSE) # TRUE (as names are not checked)[] [303] [304] Overfull \hbox (48.78088pt too wide) in paragraph at lines 21171--21171 []\T1/pcr/m/n/10 .kappa_tri(z, exact = FALSE, LINPACK = TRUE, norm = NULL, upl o = "U", ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 21173--21173 []\T1/pcr/m/n/10 rcond(x, norm = c("O","I","1"), triangular = FALSE, uplo = "U ", ...)[] [305] Underfull \hbox (badness 2961) in paragraph at lines 21258--21261 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [306] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21319--21319 []\T1/pcr/m/n/9 ## Moore-Penrose inverse { ~= MASS::ginv(); differing tol (val ue & meaning)}:[] [307] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21341--21341 []\T1/pcr/m/n/9 try( kappa(m76, exact=TRUE, norm="1") )# error in solve().. m ust be square[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21343--21343 []\T1/pcr/m/n/9 ## ==> use pseudo-inverse instead of solve() for rectangular { and norm != "2"}:[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21363--21363 [] \T1/pcr/m/n/9 inv_z = solve(A, tol = 1e-19))) # 5.22057e16 on x86_ 64 Linux with GCC[] [308] [309] [310] [311] [312] [313] Underfull \hbox (badness 1975) in paragraph at lines 21769--21772 []\T1/ptm/m/n/10 The value of the in-ter-nal eval-u-a-tion of a top-level \T1/p hv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sion is al-ways as-signed to [314] [315] [316] [317] [318] [319] Underfull \hbox (badness 1077) in paragraph at lines 22192--22197 []\T1/ptm/m/n/10 In late 2017 a []\T1/pcr/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/pcr/m/n/10 libcurl []\T 1/ptm/m/n/10 and [320] Underfull \hbox (badness 10000) in paragraph at lines 22206--22213 [][][]$\T1/pcr/m/n/10 https : / / curl . se / docs / sslcerts . html$[][] \T1/p tm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / curl . se / docs / [321] Underfull \hbox (badness 1112) in paragraph at lines 22279--22288 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/pcr/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2970) in paragraph at lines 22337--22340 []\T1/pcr/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/pcr/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a Underfull \hbox (badness 2951) in paragraph at lines 22337--22340 \T1/ptm/m/n/10 hid-den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [322] [323] Underfull \hbox (badness 10000) in paragraph at lines 22451--22455 []\T1/ptm/m/n/10 To sup-press mes-sages dur-ing the load-ing of pack-ages use Underfull \hbox (badness 1454) in paragraph at lines 22451--22455 [][][]\T1/pcr/m/n/10 suppressPackageStartupMessages[][][][]\T1/ptm/m/n/10 : thi s will sup-press all mes-sages from \T1/phv/m/n/10 R \T1/ptm/m/n/10 it-self Underfull \hbox (badness 1221) in paragraph at lines 22456--22463 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 is called with no []\T1/pcr/m/n/10 package []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 help []\T1/ptm/m /n/10 ar-gu-ment, it lists all avail-able pack- [324] [325] Underfull \hbox (badness 10000) in paragraph at lines 22586--22593 [][][]\T1/pcr/m/n/10 attach[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 detach [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 search[][][][]\T1/ptm/m/n/10 , [] [][]\T1/pcr/m/n/10 objects[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 autoloa d[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 requireNamespace[][][][]\T1/ptm/ m/n/10 , [326] Underfull \hbox (badness 10000) in paragraph at lines 22707--22711 []\T1/ptm/m/n/10 Do not use [][][]\T1/pcr/m/n/10 dyn.unload[][][] []\T1/ptm/m/n /10 on a DLL loaded by []\T1/pcr/m/n/10 library.dynam[]\T1/ptm/m/n/10 : use [327] [328] [329] [330] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22947--22947 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 22952--22952 [] \T1/pcr/m/n/10 ignore.case = FALSE, include.dirs = FALSE, no.. = FALSE,[] [331] Underfull \hbox (badness 3343) in paragraph at lines 23016--23020 [][][]\T1/pcr/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fil e.access[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 files[][][] []\T1/ptm/ m/n/10 for many more file han-dling func-tions and [332] [333] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23161--23161 [] \T1/pcr/m/n/9 identical(L$b, e$b)) # "$" working for environments as for lists[] [334] Overfull \hbox (20.58041pt too wide) in paragraph at lines 23172--23172 [] \T1/pcr/m/n/9 df = data.frame(x = rnorm(20), y = rbinom(20, 1, prob = 0.2))),[] [335] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23283--23283 []\T1/pcr/m/n/9 ## This however annihilates all objects in .GlobalEnv with the same names ![] Overfull \hbox (74.58035pt too wide) in paragraph at lines 23286--23286 []\T1/pcr/m/n/9 attach("all.rda") # safer and will warn about masked objects w / same name in .GlobalEnv[] [336] Underfull \hbox (badness 6380) in paragraph at lines 23333--23341 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup- [337] Underfull \hbox (badness 2564) in paragraph at lines 23437--23440 []\T1/ptm/m/n/10 Almost all the out-put rou-tines used by \T1/phv/m/n/10 R \T1/ ptm/m/n/10 it-self un-der Win-dows ig-nore the set-ting of [338] Overfull \hbox (4.38043pt too wide) in paragraph at lines 23480--23480 []\T1/pcr/m/n/9 Sys.setlocale("LC_TIME", "de_DE.UTF-8") # Linux, macOS, other Unix-alikes[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 23484--23484 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # in C_TIME locale \T S1/pcr/m/n/9 '\T1/pcr/m/n/9 cT\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 ; typically German [] Overfull \hbox (42.18039pt too wide) in paragraph at lines 23488--23488 []\T1/pcr/m/n/9 c(m = months(then), wd = weekdays(then)) # "standard" (still p latform specific ?)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 23495--23495 []\T1/pcr/m/n/9 ## Not run: Sys.setlocale("LC_COLLATE", "C") # turn off loca le-specific sorting,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 23497--23497 []\T1/pcr/m/n/9 Sys.setenv("LANGUAGE" = "es") # set the language for error/war ning messages[] [339] [340] [341] Underfull \hbox (badness 1400) in paragraph at lines 23676--23680 [][][]\T1/pcr/m/n/10 raw[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logical[] [][] []\T1/ptm/m/n/10 or `number-like' vec-tors (i.e., of types [][][]\T1/pcr/m /n/10 double[][][] []\T1/ptm/m/n/10 (class [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] Overfull \hbox (17.27832pt too wide) in paragraph at lines 24450--24450 [] \TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 %notin%\TS1/cmtt/m/n/10 ` \T1/pcr/m/n/10 <- function(x, table) match(x, table, nomatch = 0L) == 0L[] [353] [354] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24558--24558 []\T1/pcr/m/n/9 zM ##--> many "NA" matches (= 1) and four non-NAs (3 different ones: 7,9,10)[] [355] Overfull \hbox (20.58041pt too wide) in paragraph at lines 24658--24658 []\T1/pcr/m/n/9 match.arg(c("a", ""), c("", NA, "bb", "abc"), several.ok=TRUE ) # |--> "abc"[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 24660--24660 []\T1/pcr/m/n/9 ## New (2025-\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 26) option several. ok = "all" (or "all.match", "all_must_match", "all*" ..):[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24663--24663 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = FALSE)) # Error: ... \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 arg\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 must be of length 1[] Overfull \hbox (101.58032pt too wide) in paragraph at lines 24665--24665 []\T1/pcr/m/n/9 try(match.arg(abcd, c("b", "c"), several.ok = "all")) # Error: ... should be one of "b", "c"[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 24667--24667 []\T1/pcr/m/n/9 (m1 <- match.arg(abcd, letters, several.ok = TRUE )) # " a" "b" "c" "d"[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 24671--24671 [] \T1/pcr/m/n/9 identical(abcd, match.arg(abcd, abcd, several.ok = " all_must_match")))[] [356] Underfull \hbox (badness 1655) in paragraph at lines 24705--24709 []\T1/ptm/m/n/10 `function' on this help page means an in-ter-preted func-tion (also known as a `clo-sure'): [357] [358] [359] Underfull \hbox (badness 1292) in paragraph at lines 24959--24962 []\T1/ptm/m/n/10 For ma-trix \T1/ptm/m/it/10 cross \T1/ptm/m/n/10 prod-ucts, [] [][]\T1/pcr/m/n/10 crossprod[][][]() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 tcro ssprod() []\T1/ptm/m/n/10 are typ-i-cally prefer-able. [360] [361] [362] [363] [364] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25269--25269 []\T1/pcr/m/n/10 memCompress(from, type = c("gzip", "bzip2", "xz", "zstd", "no ne")) [365] [366] [367] [368] [369] Underfull \hbox (badness 1014) in paragraph at lines 25591--25599 \T1/ptm/m/n/10 al-low more (up to 3Gb). See [][]$\T1/pcr/m/n/10 https : / / lea rn . microsoft . com / en-[]gb / windows / Underfull \hbox (badness 10000) in paragraph at lines 25591--25599 \T1/pcr/m/n/10 desktop / Memory / physical-[]address-[]extension$[][] \T1/ptm/m /n/10 and [][]$\T1/pcr/m/n/10 https : / / learn . [370] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25665--25665 [] \T1/pcr/m/n/10 by.x = by, by.y = by, all = FALSE, all.x = all, all.y = all,[] [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 1448) in paragraph at lines 26219--26227 []\T1/pcr/m/n/10 anyNA(recursive = FALSE) []\T1/ptm/m/n/10 works the same way a s []\T1/pcr/m/n/10 is.na[]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 anyNA(recursive = [379] Underfull \hbox (badness 3849) in paragraph at lines 26336--26341 []\T1/pcr/m/n/10 as.name []\T1/ptm/m/n/10 first co-erces its ar-gu-ment in-ter- nally to a char-ac-ter vec-tor (so meth-ods for [380] Underfull \hbox (badness 2165) in paragraph at lines 26414--26420 []\T1/ptm/m/n/10 For an [][][]\T1/pcr/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, Underfull \hbox (badness 1199) in paragraph at lines 26414--26420 \T1/ptm/m/n/10 i.e., []\T1/pcr/m/n/10 names(as.list(env, all.names = TRUE)) []\ T1/ptm/m/n/10 which are also given by [][][]\T1/pcr/m/n/10 ls[][][](env, Underfull \hbox (badness 3148) in paragraph at lines 26414--26420 \T1/pcr/m/n/10 all.names = TRUE, sorted = FALSE)[]\T1/ptm/m/n/10 . If the en-vi -ron-ment is used as a hash ta-ble, [381] [382] [383] Underfull \hbox (badness 2237) in paragraph at lines 26579--26581 []\T1/ptm/m/n/10 character string: par-tial match-ing to one of []\T1/pcr/m/n/1 0 c("bytes", "chars", [384] [385] [386] Underfull \hbox (badness 6188) in paragraph at lines 26807--26810 []\T1/ptm/m/n/10 optional [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/pcr/m/n/10 print()[]\T1/ptm/m/n/10 , used by [387] [388] [389] Underfull \hbox (badness 1521) in paragraph at lines 27000--27014 \T1/ptm/m/n/10 tion []\T1/pcr/m/n/10 GetFinalPathNameByHandle []\T1/ptm/m/n/10 and in case of an er-ror (such as in-suf-fi-cient per- [390] [391] [392] [393] Underfull \hbox (badness 2197) in paragraph at lines 27318--27322 []\T1/ptm/m/n/10 Loading a names-pace should where pos-si-ble be silent, with s tartup mes-sages given by Underfull \hbox (badness 4048) in paragraph at lines 27318--27322 []\T1/pcr/m/n/10 .onAttach[]\T1/ptm/m/n/10 . These mes-sages (and any es-sen-ti al ones from []\T1/pcr/m/n/10 .onLoad[]\T1/ptm/m/n/10 ) should use [394] Underfull \hbox (badness 2846) in paragraph at lines 27332--27336 []\T1/ptm/m/n/10 Uses of []\T1/pcr/m/n/10 library []\T1/ptm/m/n/10 with ar-gu-m ent []\T1/pcr/m/n/10 help []\T1/ptm/m/n/10 to dis-play ba-sic in-for-ma-tion ab out the pack- Underfull \hbox (badness 1990) in paragraph at lines 27332--27336 \T1/ptm/m/n/10 age should use []\T1/pcr/m/n/10 format []\T1/ptm/m/n/10 on the c om-puted pack-age in-for-ma-tion ob-ject and pass this to Overfull \hbox (12.78088pt too wide) in paragraph at lines 27376--27376 []\T1/pcr/m/n/10 attachNamespace(ns, pos = 2L, depends = NULL, exclude, includ e.only) Overfull \hbox (0.78088pt too wide) in paragraph at lines 27380--27380 [] \T1/pcr/m/n/10 keep.parse.data = getOption("keep.parse.data.pk gs"))[] [395] Underfull \hbox (badness 3568) in paragraph at lines 27428--27434 []\T1/ptm/m/n/10 Argument []\T1/pcr/m/n/10 versionCheck []\T1/ptm/m/n/10 al-low s to re-quire a names-pace with re-stricted (e.g., min-i- Underfull \hbox (badness 2096) in paragraph at lines 27428--27434 \T1/ptm/m/n/10 mal or max-i-mal) pack-age ver-sion ([][][]\T1/pcr/m/n/10 packag eVersion[][][]()[]\T1/ptm/m/n/10 ). If the ver-sion check fails, Underfull \hbox (badness 10000) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 loadNamespace []\T1/ptm/m/n/10 does not at-tach the name space it loads to the search path. Underfull \hbox (badness 1168) in paragraph at lines 27446--27452 []\T1/pcr/m/n/10 attachNamespace []\T1/ptm/m/n/10 can be used to at-tach a fram e con-tain-ing the ex-ported val-ues of a Underfull \hbox (badness 10000) in paragraph at lines 27459--27461 []\T1/pcr/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/pcr/m/n/10 pkg %in% [396] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27526--27526 [] \T1/pcr/m/n/9 ## The string "foo" and the symbol \TS1/pcr/m/n/9 '\T1/pcr/m/ n/9 foo\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 can be used interchangeably here:[] [397] [398] [399] Underfull \hbox (badness 8189) in paragraph at lines 27726--27732 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 is.numeric []\T1/ptm/ m/n/10 re-turns []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 if its ar-gu-ment is of [][]mode[][][] [400] [401] [402] Underfull \hbox (badness 2591) in paragraph at lines 27952--27960 \T1/ptm/m/n/10 ject as ob-tained by [][][]\T1/pcr/m/n/10 R.version[][][][]\T1/p tm/m/n/10 . For []\T1/pcr/m/n/10 as.numeric_version []\T1/ptm/m/n/10 and [403] [404] [405] [406] [407] Underfull \hbox (badness 1603) in paragraph at lines 28239--28241 []\T1/ptm/m/n/10 date ob-jects or char-ac-ter vec-tors. (Char-ac-ter vec-tors a re con-verted by [408] Underfull \hbox (badness 1210) in paragraph at lines 28374--28383 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini- [409] [410] [411] Underfull \hbox (badness 3271) in paragraph at lines 28601--28604 []\T1/ptm/m/n/10 default PDF viewer. The de-fault is set from the en-vi-ron-men t vari-able [412] [413] [414] Underfull \hbox (badness 3138) in paragraph at lines 28921--28927 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/pcr/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/pcr/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 2088) in paragraph at lines 28921--28927 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by [415] Underfull \hbox (badness 1389) in paragraph at lines 28960--28962 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 28993--28999 []\T1/ptm/m/n/10 logical: should per-directory pack-age lock-ing be used by Underfull \hbox (badness 3826) in paragraph at lines 29008--29013 []\T1/ptm/m/n/10 Used by [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 1009) in paragraph at lines 29026--29029 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/pcr/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/pcr/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [416] Underfull \hbox (badness 10000) in paragraph at lines 29042--29045 []\T1/ptm/m/n/10 The de-fault type of pack-ages to be down-loaded and in-stalle d -- see [417] [418] [419] [420] [421] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29431--29431 []\T1/pcr/m/n/9 system.time(o <- sort.list(xx, method = "radix")) # 0.007 sec, 300X faster[] Underfull \hbox (badness 10000) in paragraph at lines 29444--29448 []\T1/ptm/m/n/10 where el-e-ment []\T1/pcr/m/n/10 A[c(arrayindex.x, arrayindex. y)] = FUN(X[arrayindex.x], [422] [423] Underfull \hbox (badness 1210) in paragraph at lines 29593--29596 []\T1/pcr/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/pcr/m/n/10 parse(tex t=s, [424] [425] [426] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29790--29790 []\T1/pcr/m/n/9 tryCatch(parse(text = txt, srcfile = sf), error = function(e) "Syntax error.")[] Underfull \hbox (badness 1478) in paragraph at lines 29820--29825 \T1/ptm/m/n/10 zero-length [][][]\T1/pcr/m/n/10 character[][][](0)[]\T1/ptm/m/n /10 . Note that when []\T1/pcr/m/n/10 collapse []\T1/ptm/m/n/10 is a string, [427] Underfull \hbox (badness 7133) in paragraph at lines 29880--29886 [][][]\T1/pcr/m/n/10 toString[][][] []\T1/ptm/m/n/10 typ-i-cally calls []\T1/pc r/m/n/10 paste(*, collapse=", ")[]\T1/ptm/m/n/10 . String ma-nip-u-la-tion with Overfull \hbox (42.18039pt too wide) in paragraph at lines 29902--29902 []\T1/pcr/m/n/9 ## Notice that the recycling rules make every input as long as the longest input.[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29914--29914 []\T1/pcr/m/n/9 paste("1st", "2nd", "3rd", collapse = ", ") # probably not wha t you wanted[] [428] Overfull \hbox (17.87582pt too wide) in paragraph at lines 29927--29927 []\T1/pcr/m/n/9 ## zero length arguments recycled as \TS1/cmtt/m/n/9 `\T1/pcr/ m/n/9 ""\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 -- NB: \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 { }\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 <==> character(0) here[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29930--29930 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 recycle0 = TRUE\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 allows standard vectorized behaviour, i.e., zero-length[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29931--29931 []\T1/pcr/m/n/9 ## recycling resulting in zero-length result character(0):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 29934--29934 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- not so good!") # -> ".. value is -- not .."[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 29935--29935 []\T1/pcr/m/n/9 paste("The value is", val[valid], "-- good: empty!", recycle0= TRUE) # -> character(0)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29938--29938 []\T1/pcr/m/n/9 paste("foo", {}, "bar", collapse = "|") # |-- > "foo bar"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 29940--29940 []\T1/pcr/m/n/9 ## If all arguments are empty (and collapse a string), "" r esults always[] [429] [430] [431] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30129--30129 []\T1/pcr/m/n/9 mtcars |> subset(cyl == 4) |> nrow() # same as nrow(subset(mt cars, cyl == 4))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 30147--30147 []\T1/pcr/m/n/9 stop() |> (function(...) {})() # stop() is not used on RHS so is not evaluated[] [432] Underfull \hbox (badness 1360) in paragraph at lines 30202--30206 []\T1/ptm/m/n/10 All other []\T1/pcr/m/n/10 type[]\T1/ptm/m/n/10 s give a warn- ing or an er-ror; us-ing, e.g., []\T1/pcr/m/n/10 type = [433] [434] [435] [436] Underfull \hbox (badness 2277) in paragraph at lines 30517--30523 \T1/ptm/m/n/10 i.e., strictly in-clude the bounds of []\T1/pcr/m/n/10 x[]\T1/pt m/m/n/10 . New from \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0, al-low-ing [437] Overfull \hbox (0.78088pt too wide) in paragraph at lines 30552--30552 [] \T1/pcr/m/n/10 (min.n = 1, shrink.sml = 0.25, high.u.bias = 0.8, u5.bias = 1.7,[] [438] Underfull \hbox (badness 1701) in paragraph at lines 30647--30651 []\T1/ptm/m/n/10 This func-tion is al-most never used: []\TS1/cmtt/m/n/10 `\T1/ pcr/m/n/10 name\TS1/cmtt/m/n/10 ` []\T1/ptm/m/n/10 or, more care-fully, [][][]\ T1/pcr/m/n/10 get[][][](name, envir = [439] Underfull \hbox (badness 1796) in paragraph at lines 30716--30719 []\T1/ptm/m/n/10 character string (or []\T1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/pcr/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [440] [441] [442] [443] Underfull \hbox (badness 10000) in paragraph at lines 30928--30931 []\T1/ptm/m/n/10 Option []\T1/pcr/m/n/10 width []\T1/ptm/m/n/10 con-trols the p rint-ing of vec-tors, ma-tri-ces and ar-rays, and op-tion [444] Overfull \hbox (47.58038pt too wide) in paragraph at lines 30999--30999 []\T1/pcr/m/n/9 (x <- 2^seq(-8, 30, by=1/4)) # auto-prints; by default all in "exponential" format[] [445] [446] [447] [448] [449] [450] [451] Underfull \hbox (badness 2961) in paragraph at lines 31487--31490 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/pcr/m/n/10 https : / / n etlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / [452] [453] Overfull \hbox (25.98041pt too wide) in paragraph at lines 31642--31642 [] \T1/pcr/m/n/9 c1 = rep(c(1,0,0), 2), c2 = rep(c(0,1,0), 2), c3 = rep(c(0,0,1),2))[] [454] [455] [456] [457] Overfull \hbox (15.18042pt too wide) in paragraph at lines 31938--31938 []\T1/pcr/m/n/9 (nn <- "\u0126\u0119\u1114\u022d\u2001\u03e2\u0954\u0f3f\u13d3 \u147b\u203c")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 31949--31949 []\T1/pcr/m/n/9 n2 <- "\U0126\U0119\U1114\U022d\U2001\U03e2\U0954\U0f3f\U13d3\ U147b\U203c"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 31960--31960 []\T1/pcr/m/n/9 ## nul characters (for terminating strings in C) are not allow ed (parse errors)[] Underfull \vbox (badness 10000) has occurred while \output is active [458] [459] Underfull \hbox (badness 7415) in paragraph at lines 32057--32063 []\T1/ptm/m/n/10 Do \T1/ptm/m/it/10 not \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R.v ersion$os []\T1/ptm/m/n/10 to test the plat-form the code is run-ning on: use Overfull \hbox (42.18039pt too wide) in paragraph at lines 32081--32081 []\T1/pcr/m/n/9 mtext(R.version.string, side = 1, line = 4, adj = 1) # a usefu l bottom-right note[] [460] Overfull \hbox (6.78088pt too wide) in paragraph at lines 32127--32127 []\T1/pcr/m/n/10 set.seed(seed, kind = NULL, normal.kind = NULL, sample.kind = NULL)[] [461] [462] Underfull \hbox (badness 3713) in paragraph at lines 32273--32284 []\T1/pcr/m/n/10 normal.kind []\T1/ptm/m/n/10 can be []\T1/pcr/m/n/10 "Kinderma n-Ramage"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Buggy Kinderman-Ramage" []\T1/ptm /m/n/10 (not [463] [464] Underfull \hbox (badness 6284) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Source code for-merly at []\T1/pcr/m/n/10 http://www.math.keio.a c.jp/~matumoto/emt.html[]\T1/ptm/m/n/10 . Underfull \hbox (badness 2932) in paragraph at lines 32429--32434 \T1/ptm/m/n/10 Now see [][]$\T1/pcr/m/n/10 https : / / www . math . sci . hiros hima-[]u . ac . jp / ~m-[]mat / MT / VERSIONS / [465] Underfull \hbox (badness 1533) in paragraph at lines 32550--32553 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [466] [467] [468] Overfull \hbox (42.78088pt too wide) in paragraph at lines 32704--32704 [] \T1/pcr/m/n/10 ties.method = c("average", "first", "last", "random", "m ax", "min"))[] Underfull \hbox (badness 1038) in paragraph at lines 32722--32733 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/pcr/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [469] [470] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32873--32873 []\T1/pcr/m/n/9 rapply(X, function(x) x, how = "replace") -> X.; stopifnot(ide ntical(X, X.))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 32875--32875 []\T1/pcr/m/n/9 rapply(X, deparse, control = "all") # passing extras. argument of deparse()[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 32876--32876 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "list")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32877--32877 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32878--32878 []\T1/pcr/m/n/9 rapply(X, nchar, classes = "character", h ow = "unlist")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 32885--32885 []\T1/pcr/m/n/9 rapply(E, nchar, classes = "character", deflt = NA_integer_, h ow = "unlist")[] [471] [472] [473] [474] [475] Overfull \hbox (25.98041pt too wide) in paragraph at lines 33195--33195 []\T1/pcr/m/n/9 ## Bit representation [ sign | exponent | mantissa ] of doubl e prec numbers :[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 33197--33197 []\T1/pcr/m/n/9 bitC <- function(x) noquote(vapply(as.double(x), function(x) { # split one double[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33207--33207 []\T1/pcr/m/n/9 d2bI <- function(x) vapply(as.double(x), function(x) intToBits (numToInts(x)), raw(64L))[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 33208--33208 []\T1/pcr/m/n/9 d2b <- function(x) vapply(as.double(x), function(x) numToBits(x) , raw(64L))[] Underfull \vbox (badness 10000) has occurred while \output is active [476] [477] Underfull \hbox (badness 4048) in paragraph at lines 33302--33307 []\T1/ptm/m/n/10 Either an ob-ject whose mode will give the mode of the vec-tor to Underfull \hbox (badness 4582) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 be read, or a char-ac-ter vec-tor of length one de-scrib-ing the mode: Underfull \hbox (badness 1824) in paragraph at lines 33302--33307 \T1/ptm/m/n/10 one of []\T1/pcr/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "double"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 "int"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/ 10 , [478] [479] [480] [481] [482] [483] [484] [485] Underfull \hbox (badness 2080) in paragraph at lines 33844--33854 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 infoRDS[]\T1/ptm/m/n/10 , an \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 list with el-e-ments []\T1/pcr/m/n/10 version []\T1/ptm/m/n /10 (ver-sion num-ber, cur-rently 2 or 3), Overfull \hbox (4.38043pt too wide) in paragraph at lines 33881--33881 []\T1/pcr/m/n/9 ## or examine the object via a connection, which will be opene d as needed.[] [486] [487] [488] [489] [490] [491] [492] Underfull \hbox (badness 7558) in paragraph at lines 34406--34410 []\T1/pcr/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1968) in paragraph at lines 34416--34418 []\T1/ptm/m/n/10 This help page is based on the TRE doc-u-men-ta-tion and the P OSIX stan-dard, and the [493] Underfull \hbox (badness 10000) in paragraph at lines 34427--34429 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / Underfull \hbox (badness 1975) in paragraph at lines 34430--34434 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/pcr/m /n/10 https : / / www . [494] [495] [496] [497] [498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 34807--34807 []\T1/pcr/m/n/9 rep(1:4, each = 2, times = 3) # length 24, 3 complete replications[] [499] Underfull \hbox (badness 10000) in paragraph at lines 34885--34889 [][][]\T1/pcr/m/n/10 TRUE[][][] [][]FALSE[][][] [][]NULL[][][] [][]Inf[][][] [] []NaN[][][] [][]NA[][][] [][]NA_integer_[][][] [][]NA_real_[][][] [][]NA_comple x_[][][] [500] [501] [502] [503] Underfull \hbox (badness 2302) in paragraph at lines 35118--35121 []\T1/pcr/m/n/10 signif []\T1/ptm/m/n/10 rounds the val-ues in its first ar-gu- ment to the spec-i-fied num-ber of \T1/ptm/m/it/10 sig-nif-i-cant Underfull \hbox (badness 1824) in paragraph at lines 35118--35121 \T1/ptm/m/n/10 dig-its. Hence, for []\T1/pcr/m/n/10 numeric x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 signif(x, dig) []\T1/ptm/m/n/10 is the same as []\T1/pcr/m/n/ 10 round(x, dig - [504] [505] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35250--35250 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35253--35253 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 35260--35260 [] \T1/pcr/m/n/10 units = c("secs", "mins", "hours", "days", "months", "y ears"),[] [506] [507] [508] [509] [510] [511] [512] Overfull \hbox (66.78088pt too wide) in paragraph at lines 35709--35709 [] \T1/pcr/m/n/10 useHash = (n > 1e+07 && !replace && is.null(prob) && size <= n/2))[] [513] [514] [515] [516] [517] [518] Overfull \hbox (12.78088pt too wide) in paragraph at lines 36155--36155 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, skipNul = FALSE)[] [519] [520] Underfull \hbox (badness 1158) in paragraph at lines 36259--36264 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [521] [522] Overfull \hbox (15.18042pt too wide) in paragraph at lines 36445--36445 []\T1/pcr/m/n/9 cat("TITLE extra line", "2 3 5 7", "11 13 17", file = "ex.data ", sep = "\n") [523] [524] [525] [526] Underfull \hbox (badness 4752) in paragraph at lines 36707--36710 []\T1/ptm/m/n/10 The fourth form gen-er-ates the in-te-ger se-quence []\T1/pcr/ m/n/10 1, 2, ..., length(along.with)[]\T1/ptm/m/n/10 . Underfull \hbox (badness 5563) in paragraph at lines 36711--36717 []\T1/ptm/m/n/10 The fifth form gen-er-ates the se-quence []\T1/pcr/m/n/10 1, 2 , ..., length(from) []\T1/ptm/m/n/10 (as if ar-gu-ment [527] Underfull \hbox (badness 1845) in paragraph at lines 36821--36824 []\T1/ptm/m/n/10 A vec-tor of class []\T1/pcr/m/n/10 "Date"[]\T1/ptm/m/n/10 . T ype []\T1/pcr/m/n/10 "[][]integer[][][]" []\T1/ptm/m/n/10 is of-ten pre-served on pur-pose, sav-ing [528] Overfull \hbox (31.3804pt too wide) in paragraph at lines 36842--36842 []\T1/pcr/m/n/9 ## find all 7th of the month _strictly_ inside two dates, the last being a 7th.[] [529] [530] Overfull \hbox (42.18039pt too wide) in paragraph at lines 37018--37018 []\T1/pcr/m/n/9 try(sequence(3, 1:3, 1[0], recycle = FALSE)) # an Error; defau lt will be "empty":[] [531] [532] [533] [534] [535] Underfull \hbox (badness 6094) in paragraph at lines 37362--37366 []\T1/pcr/m/n/10 getAllConnections []\T1/ptm/m/n/10 re-turns a se-quence of in- te-ger con-nec-tion de-scrip-tors for use Underfull \hbox (badness 6559) in paragraph at lines 37362--37366 \T1/ptm/m/n/10 with []\T1/pcr/m/n/10 getConnection[]\T1/ptm/m/n/10 , cor-re-spo nd-ing to the row names of the ta-ble re-turned by [536] [537] Underfull \hbox (badness 3826) in paragraph at lines 37453--37464 []\T1/ptm/m/n/10 In Win-dows, com-mand line in-ter-pre-ta-tion is done by the a p-pli-ca-tion as well as the Underfull \hbox (badness 3492) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 shell. It may de-pend on the com-piler used: Mi-crosoft's rules for the C run-time Underfull \hbox (badness 10000) in paragraph at lines 37453--37464 \T1/ptm/m/n/10 are given at [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / cpp / c-[]language / Underfull \hbox (badness 1635) in paragraph at lines 37453--37464 \T1/pcr/m/n/10 parsing-[]c-[]command-[]line-[]arguments ? view = msvc-[]160$[][ ]\T1/ptm/m/n/10 . It may de-pend on the [538] [539] [540] [541] [542] [543] [544] [545] Overfull \hbox (66.78088pt too wide) in paragraph at lines 38014--38014 [] \T1/pcr/m/n/10 method = c("auto", "shell", "quick", "radix"), index .return = FALSE)[] [546] [547] [548] [549] Overfull \hbox (9.78043pt too wide) in paragraph at lines 38309--38309 []\T1/pcr/m/n/9 sort_by.data.frame(mtcars, ~ list(am, -mpg)) |> subset(select = c(am, mpg))[] [550] Overfull \hbox (6.78088pt too wide) in paragraph at lines 38347--38347 [] \T1/pcr/m/n/10 print. = TRUE, echo = TRUE, max.deparse.length = Inf,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 38349--38349 [] \T1/pcr/m/n/10 deparseCtrl = c("keepInteger", "showAttributes" , "keepNA"),[] [551] Underfull \hbox (badness 4954) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 vec-tor, passed as []\T1/ pcr/m/n/10 control []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 deparse[][][]()[]\T 1/ptm/m/n/10 , see also Underfull \hbox (badness 5050) in paragraph at lines 38393--38399 [][][]\T1/pcr/m/n/10 .deparseOpts[][][][]\T1/ptm/m/n/10 . In \T1/phv/m/n/10 R \ T1/ptm/m/n/10 ver-sion <= 3.3.x, this was hard-coded to [552] Overfull \hbox (20.58041pt too wide) in paragraph at lines 38503--38503 []\T1/pcr/m/n/9 ## (all should look "as if on top level", e.g. non-assignments should print:)[] [553] [554] [555] [556] [557] [558] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38875--38875 []\T1/pcr/m/n/9 ### Calculate \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 z-scores\TS1/pcr/m /n/9 ' \T1/pcr/m/n/9 by group (standardize to mean zero, variance one)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 38890--38890 []\T1/pcr/m/n/9 ## Notice that assignment form is not used since a variable is being added[] [559] [560] [561] Underfull \hbox (badness 10000) in paragraph at lines 39122--39124 [][][]$\T1/pcr/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / [562] [563] [564] Overfull \hbox (12.78088pt too wide) in paragraph at lines 39348--39348 []\T1/pcr/m/n/10 srcfile(filename, encoding = getOption("encoding"), Enc = "un known") Overfull \hbox (12.78088pt too wide) in paragraph at lines 39349--39349 []\T1/pcr/m/n/10 srcfilecopy(filename, lines, timestamp = Sys.time(), isFile = FALSE)[] [565] [566] [567] Underfull \hbox (badness 2828) in paragraph at lines 39548--39556 []\T1/ptm/m/n/10 Stack over-flow er-rors can be caught and han-dled by ex-it-in g han-dlers es-tab-lished with [568] [569] Overfull \hbox (63.78036pt too wide) in paragraph at lines 39684--39684 []\T1/pcr/m/n/9 startsWith(search(), "package:") # typically at least two FALS E, nowadays often three [570] Underfull \hbox (badness 6110) in paragraph at lines 39780--39790 []\T1/ptm/m/n/10 A func-tion []\T1/pcr/m/n/10 .First []\T1/ptm/m/n/10 (and [][] []\T1/pcr/m/n/10 .Last[][][][]\T1/ptm/m/n/10 ) can be de-fined in ap-pro-pri-at e `\T1/pcr/m/n/10 .Rprofile\T1/ptm/m/n/10 ' or Underfull \hbox (badness 2635) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' files or have been saved in `\T1/pcr/m/n/10 .RData\T1/ptm/m/n/10 '. If you want a dif-fer-ent Underfull \hbox (badness 1237) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set of pack-ages than the de-fault ones when you start, in-sert a call to [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 in the Underfull \hbox (badness 1231) in paragraph at lines 39780--39790 \T1/pcr/m/n/10 = character()) []\T1/ptm/m/n/10 will at-tach no ex-tra pack-ages on startup (only the \T1/ptm/b/n/10 base \T1/ptm/m/n/10 pack-age) (or Underfull \hbox (badness 1112) in paragraph at lines 39780--39790 \T1/ptm/m/n/10 set []\T1/pcr/m/n/10 R_DEFAULT_PACKAGES=NULL []\T1/ptm/m/n/10 as an en-vi-ron-ment vari-able be-fore run-ning \T1/phv/m/n/10 R\T1/ptm/m/n/10 ). Us-ing [571] Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/pcr/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1496) in paragraph at lines 39836--39842 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/pcr/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be Underfull \hbox (badness 1460) in paragraph at lines 39851--39858 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/pcr/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 39851--39858 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment [572] Overfull \hbox (4.38043pt too wide) in paragraph at lines 39910--39910 []\T1/pcr/m/n/9 # Variable expansion in double quotes, string literals with ba ckslashes in[] [573] Underfull \hbox (badness 5985) in paragraph at lines 39997--40000 []\T1/ptm/m/n/10 The de-fault han-dler stores the er-ror mes-sage in a buffer; it can be re-trieved by Underfull \hbox (badness 1460) in paragraph at lines 39997--40000 []\T1/pcr/m/n/10 geterrmessage()[]\T1/ptm/m/n/10 . It also stores a trace of th e call stack that can be re-trieved by [574] [575] Underfull \hbox (badness 1484) in paragraph at lines 40086--40090 []\T1/ptm/m/n/10 alternative to []\T1/pcr/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/pcr/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an Overfull \hbox (60.78088pt too wide) in paragraph at lines 40146--40146 [] \T1/pcr/m/n/10 assert <- function(exprs) eval.parent(substitute(stopifnot(e xprs = exprs))) [576] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40172--40172 []\T1/pcr/m/n/9 stopifnot(all.equal(pi, 3.141593), 2 < 2, (1:10 < 12), "a" < "b") |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40188--40188 []\T1/pcr/m/n/9 stopifnot(all.equal(rep(list(pi),4), list(3.1, 3.14, 3.141, 3. 1415))) |> try()[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 40196--40196 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 {Yes, learn how to use do.c all(substitute, ...) in a powerful manner !!}[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 40198--40198 []\T1/pcr/m/n/9 bdy <- do.call(substitute, list(bdy, list(stopifnot = quote(warnifnot))))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 40199--40199 []\T1/pcr/m/n/9 bdy[[N-1]] <- do.call(substitute, list(bdy[[N-1]], list(stop = quote(warning))))[] [577] Underfull \hbox (badness 1436) in paragraph at lines 40263--40267 []\T1/ptm/m/n/10 integer de-ter-min-ing the []\T1/pcr/m/n/10 format()[]\T1/ptm/ m/n/10 ing of sec-onds when needed. Note [578] [579] [580] [581] [582] [583] Overfull \hbox (8.42813pt too wide) in paragraph at lines 40683--40683 []\T1/pcr/m/n/9 ## time with fractional seconds (setting \TS1/cmtt/m/n/9 `\T1/ pcr/m/n/9 tz = ..\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 for reproducible output)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 40685--40685 []\T1/pcr/m/n/9 z3 # prints without fractional seconds by default, digits.sec = NULL ("= 0")[] Underfull \vbox (badness 10000) has occurred while \output is active [584] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40718--40718 []\T1/pcr/m/n/9 format(s1 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 19 78-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 day \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 7), "%a")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 40719--40719 []\T1/pcr/m/n/9 format(s2 <- seq.Date(as.Date(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 20 00-01-01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), by = \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 mon th\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , len = 12), "%b")[] [585] Overfull \hbox (0.78088pt too wide) in paragraph at lines 40831--40831 [] \T1/pcr/m/n/10 add the string to the left of the match to the ou tput.[] [586] [587] [588] [589] [590] Overfull \hbox (6.78088pt too wide) in paragraph at lines 41112--41112 [] \T1/pcr/m/n/10 exdent = 0, prefix = "", simplify = TRUE, initial = p refix)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41156--41156 []\T1/pcr/m/n/9 x <- paste(readLines(file.path(R.home("doc"), "THANKS")), coll apse = "\n")[] [591] [592] [593] [594] [595] [596] [597] Overfull \hbox (52.98038pt too wide) in paragraph at lines 41612--41612 []\T1/pcr/m/n/9 ## In fact, you can pass vectors into several arguments, and e verything gets added.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 41615--41615 []\T1/pcr/m/n/9 ## If there are missing values, the sum is unknown, i.e., also missing, ....[] [598] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41657--41657 []\T1/pcr/m/n/10 format(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 41659--41659 [] \T1/pcr/m/n/10 print(x, digits = max(3L, getOption("digits") - 3L), zdigits = 4L, ...)[] [599] Overfull \hbox (4.38043pt too wide) in paragraph at lines 41747--41747 []\T1/pcr/m/n/9 summary(penguins$body_mass) # includes quantile(), mean, and NAs (if any)[] [600] [601] [602] [603] [604] Overfull \hbox (31.3804pt too wide) in paragraph at lines 42087--42087 [] \T1/pcr/m/n/9 cat(ch,":", switch(EXPR = ch, a =, A = 1, b = 2:3, "Otherw ise: last"),"\n")[] [605] [606] [607] [608] Overfull \hbox (20.58041pt too wide) in paragraph at lines 42298--42298 []\T1/pcr/m/n/9 if(.Platform$OS.type == "unix") ## on Unix-alikes such Linux, macOS, FreeBSD:[] Underfull \hbox (badness 2293) in paragraph at lines 42328--42334 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de- Underfull \hbox (badness 1237) in paragraph at lines 42328--42334 \T1/ptm/m/n/10 tails of wild-cards ex-pan-sion, see your sys-tem's doc-u-men-ta -tion on the []\T1/pcr/m/n/10 glob []\T1/ptm/m/n/10 sys-tem call. Underfull \hbox (badness 4792) in paragraph at lines 42346--42351 []\T1/ptm/m/n/10 If a file-name starts with []\T1/pcr/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple Underfull \hbox (badness 1107) in paragraph at lines 42346--42351 []\T1/pcr/m/n/10 Sys.glob("*.RData") []\T1/ptm/m/n/10 may or may not match `\T1 /pcr/m/n/10 .RData\T1/ptm/m/n/10 ' but will not usu-ally match [609] [610] [611] [612] Underfull \hbox (badness 10000) in paragraph at lines 42638--42642 []\T1/pcr/m/n/10 sys.status() []\T1/ptm/m/n/10 re-turns a list with com-po-nent s []\T1/pcr/m/n/10 sys.calls[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sys.parents []\ T1/ptm/m/n/10 and [613] Underfull \hbox (badness 1584) in paragraph at lines 42653--42656 []\T1/pcr/m/n/10 sys.call []\T1/ptm/m/n/10 re-turns a call, []\T1/pcr/m/n/10 sy s.function []\T1/ptm/m/n/10 a func-tion def-i-ni-tion, and []\T1/pcr/m/n/10 sys .frame []\T1/ptm/m/n/10 and [614] [615] Overfull \hbox (25.98041pt too wide) in paragraph at lines 42792--42792 []\T1/pcr/m/n/9 is.symlink <- function(paths) isTRUE(nzchar(Sys.readlink(paths ), keepNA=TRUE))[] [616] Overfull \hbox (19.22812pt too wide) in paragraph at lines 42872--42872 []\T1/pcr/m/n/9 print(Sys.setenv(R_TEST = "testit", "A+C" = 123)) # \TS1/cmtt /m/n/9 `\T1/pcr/m/n/9 A+C\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 could also be used [617] [618] Underfull \hbox (badness 1082) in paragraph at lines 43017--43020 []\T1/ptm/m/n/10 logical. If []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [619] Underfull \hbox (badness 10000) in paragraph at lines 43044--43046 [][][]\T1/pcr/m/n/10 source[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 lo adNamespace[][][] []\T1/ptm/m/n/10 which is called from [][][]\T1/pcr/m/n/10 li brary[][][](.) []\T1/ptm/m/n/10 and uses [620] [621] Underfull \hbox (badness 1038) in paragraph at lines 43211--43214 []\T1/ptm/m/n/10 a log-i-cal (not []\T1/pcr/m/n/10 NA[]\T1/ptm/m/n/10 ) in-di-c at-ing whether mes-sages writ-ten to `\T1/pcr/m/n/10 stdout\T1/ptm/m/n/10 ' or [622] [623] [624] [625] [626] [627] Underfull \hbox (badness 1442) in paragraph at lines 43595--43599 \T1/ptm/m/n/10 con-sider it to be piped or redi-rected: []\T1/pcr/m/n/10 stdout = TRUE []\T1/ptm/m/n/10 uses a pipe whereas []\T1/pcr/m/n/10 stdout = [628] [629] [630] Underfull \hbox (badness 4096) in paragraph at lines 43855--43858 []\T1/ptm/m/n/10 Use [][][]\T1/pcr/m/n/10 ftable[][][] []\T1/ptm/m/n/10 for pri nt-ing (and more) of mul-ti-di-men-sional ta-bles. [][][]\T1/pcr/m/n/10 margin. table[][][][]\T1/ptm/m/n/10 , [631] Underfull \vbox (badness 10000) has occurred while \output is active [632] Underfull \hbox (badness 7888) in paragraph at lines 43974--43978 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/pcr/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/pcr/ m/n/10 length(bin) > [633] [634] [635] [636] Overfull \hbox (63.78036pt too wide) in paragraph at lines 44237--44237 [] \T1/pcr/m/n/9 matrix(c(1L, 2L, NA, 3L), 2, dimnames = list(c("1" , "2"), c("A", "B")))),[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 44239--44239 [] \T1/pcr/m/n/9 array(list(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 2\TS1/cm tt/m/n/9 ` \T1/pcr/m/n/9 = structure(c(2, 5.75, 9.5, 13.25, 17), names = nq),[] Overfull \hbox (55.67578pt too wide) in paragraph at lines 44241--44241 [] \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 4\TS1/cmtt/m/n/9 ` \T1/pcr/m /n/9 = NULL, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 5\TS1/cmtt/m/n/9 ` \T1/pcr/m/n/9 = NULL), dim=4, dimnames=list(as.character(2:5)))))[] Underfull \hbox (badness 10000) in paragraph at lines 44254--44256 []\T1/pcr/m/n/10 removeTaskCallback []\T1/ptm/m/n/10 un-registers a func-tion t hat was reg-is-tered ear-lier via [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 1655) in paragraph at lines 44945--44952 \T1/ptm/m/n/10 may also be known as `[]\T1/pcr/m/n/10 GB[]\T1/ptm/m/n/10 ', `[] \T1/pcr/m/n/10 GB-Eire[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Belfast[]\T1 /ptm/m/n/10 ', `[]\T1/pcr/m/n/10 Europe/Guernsey[]\T1/ptm/m/n/10 ', Underfull \hbox (badness 2253) in paragraph at lines 44953--44958 []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re-turns a char-ac-ter vec-tor, se e the ex-am-ples for typ-i-cal cases. It may Underfull \hbox (badness 1655) in paragraph at lines 44953--44958 \T1/ptm/m/n/10 have an at-tribute []\T1/pcr/m/n/10 "Version"[]\T1/ptm/m/n/10 , some-thing like `[]\T1/pcr/m/n/10 "2023a"[]\T1/ptm/m/n/10 '. (It does on sys-te ms us-ing [647] Underfull \hbox (badness 4467) in paragraph at lines 45007--45016 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 OlsonNames []\T1/ptm/m/n/10 re- turns the time-zone names known to the cur-rently se- Underfull \hbox (badness 3954) in paragraph at lines 45007--45016 \T1/ptm/m/n/10 lected Ol-son/IANA database. The system-specific lo-ca-tion in t he file sys-tem varies, [648] Underfull \hbox (badness 1337) in paragraph at lines 45104--45112 \T1/ptm/m/n/10 a file `\T1/pcr/m/n/10 localtime\T1/ptm/m/n/10 ', usu-ally un-de r `\T1/pcr/m/n/10 /etc\T1/ptm/m/n/10 ' (but pos-si-bly un-der `\T1/pcr/m/n/10 / usr/local/etc\T1/ptm/m/n/10 ' or Underfull \hbox (badness 10000) in paragraph at lines 45113--45116 []\T1/ptm/m/n/10 `Because the time zone iden-ti-fier is ex-tracted from the sym -link tar-get name of [649] Underfull \hbox (badness 3460) in paragraph at lines 45172--45175 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/pcr/m/n/10 https : / / data . iana . org / Underfull \hbox (badness 4429) in paragraph at lines 45176--45178 [][][]$\T1/pcr/m/n/10 https : / / data . iana . org / time-[]zones / theory . h tml$[][] \T1/ptm/m/n/10 for the `rules' of the Ol- Overfull \hbox (31.3804pt too wide) in paragraph at lines 45185--45185 []\T1/pcr/m/n/9 ## typically some acronyms/aliases such as "UTC", "NZ", "MET", "Eire", ..., but[] [650] [651] [652] [653] [654] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45527--45527 []\T1/pcr/m/n/9 trace(pt, tracer = quote(cat(sprintf("tracing pt(*, ncp = %.15 g)\n", ncp))),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 45529--45529 []\T1/pcr/m/n/9 power.t.test(20, 1, power=0.8, sd=NULL) ##--> showing the ncp root finding:[] [655] [656] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45626--45626 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 45628--45628 [] \T1/pcr/m/n/10 getOption("deparse .max.lines", -1L)))[] [657] [658] [659] Underfull \hbox (badness 6542) in paragraph at lines 45903--45905 []\T1/pcr/m/n/10 cospi(x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sinpi(x)[]\T1/ptm/ m/n/10 , and []\T1/pcr/m/n/10 tanpi(x)[]\T1/ptm/m/n/10 , com-pute []\T1/pcr/m/n /10 cos(pi*x)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 sin(pi*x)[]\T1/ptm/m/n/10 , an d [660] [661] Overfull \hbox (30.78088pt too wide) in paragraph at lines 46025--46025 []\T1/pcr/m/n/10 trimws(x, which = c("both", "left", "right"), whitespace = "[ \t\r\n]") [662] Underfull \hbox (badness 1708) in paragraph at lines 46093--46101 []\T1/pcr/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 3713) in paragraph at lines 46093--46101 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/pcr/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [663] Underfull \hbox (badness 4859) in paragraph at lines 46133--46138 [][][]\T1/pcr/m/n/10 options[][][] []\T1/ptm/m/n/10 for set-ting er-ror han-dle rs and sup-press-ing the print-ing of er-ror mes-sages; [664] Underfull \hbox (badness 3895) in paragraph at lines 46195--46208 []\T1/ptm/m/n/10 A char-ac-ter string. The pos-si-ble val-ues are listed in the struc-ture []\T1/pcr/m/n/10 TypeTable []\T1/ptm/m/n/10 in Underfull \hbox (badness 1303) in paragraph at lines 46195--46208 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/main/util.c\T1/ptm/m/n/10 '. Cur-rent val-ue s are the vec-tor types []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "integer"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2452) in paragraph at lines 46195--46208 []\T1/pcr/m/n/10 "promise"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "object"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "language"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "char" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "..."[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "a ny"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expression"[]\T1/ptm/m/n/10 , [665] [666] [667] [668] [669] Overfull \hbox (9.78043pt too wide) in paragraph at lines 46551--46551 []\T1/pcr/m/n/9 ll <- list(as.name("sinc"), quote( a + b ), 1:10, letters, exp ression(1+x))[] [670] [671] [672] Underfull \hbox (badness 1137) in paragraph at lines 46690--46697 []\T1/ptm/m/n/10 When a func-tion call-ing []\T1/pcr/m/n/10 UseMethod("fun") [] \T1/ptm/m/n/10 is ap-plied to an ob-ject with class vec-tor [673] [674] [675] [676] [677] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47072--47072 []\T1/pcr/m/n/9 (xx <- intToUtf8(x, , TRUE)) # will only display in some local es and fonts[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47081--47081 []\T1/pcr/m/n/9 system(paste("od -x", foo)) # 2-byte units, correct on little- endian platforms[] [678] Underfull \hbox (badness 1721) in paragraph at lines 47143--47160 [][][]\T1/pcr/m/n/10 file.rename[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 f ile.symlink[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 dir.create[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dir.exists[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 normalizePath[][][][]\T1/ptm/m/n/10 , [679] Overfull \hbox (36.7804pt too wide) in paragraph at lines 47245--47245 []\T1/pcr/m/n/9 try( substr(x, 1,1) ) # gives \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 in valid multibyte string\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 error in a UTF-8 locale[] [680] Underfull \hbox (badness 1803) in paragraph at lines 47308--47311 []\T1/ptm/m/n/10 The atomic modes are []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "integer"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "numeric" []\ T1/ptm/m/n/10 (syn-onym []\T1/pcr/m/n/10 "double"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 3471) in paragraph at lines 47312--47318 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 mode = "any"[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 is.vector []\T1/ptm/m/n/10 may re-turn []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/ n/10 for the atomic modes, [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 and [681] [682] [683] Underfull \hbox (badness 1014) in paragraph at lines 47541--47544 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the warn-ing should be out-put im-me -di-ately, even if [684] [685] Overfull \hbox (36.78088pt too wide) in paragraph at lines 47651--47651 [] \T1/pcr/m/n/10 header = ngettext(n, "Warning message:\n", "Warning mes sages:\n"),[] [686] Overfull \hbox (4.38043pt too wide) in paragraph at lines 47729--47729 []\T1/pcr/m/n/9 ## at the end prints all three warnings, from the \TS1/pcr/m/n /9 '\T1/pcr/m/n/9 option(warn = 0)\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 above[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 47737--47737 []\T1/pcr/m/n/9 x <- 1:36; for(n in 1:13) for(m in 1:12) A <- matrix(x, n,m) # There were 105 warnings ...[] [687] Underfull \hbox (badness 1783) in paragraph at lines 47802--47804 []\T1/pcr/m/n/10 weekdays []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 months []\T1/pt m/m/n/10 re-turn a char-ac-ter vec-tor of names in the lo-cale in use, i.e., [688] Overfull \hbox (25.98041pt too wide) in paragraph at lines 47832--47832 []\T1/pcr/m/n/9 ## Show how easily you get month, day, year, day (of {month, w eek, yr}), ... :[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 47844--47844 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Even simpler: Date -> Matrix - dropping time info {sec,min,hour, isdst}[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 47847--47847 []\T1/pcr/m/n/9 d2mat(seq(as.Date("2000-02-02"), by=1, length.out=30)) # has R 1.0.0\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s release date[] [689] Underfull \hbox (badness 10000) in paragraph at lines 47909--47914 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 arr.ind == TRUE []\T1/ptm/m/n/10 and []\T1 /pcr/m/n/10 x []\T1/ptm/m/n/10 is an [][][]\T1/pcr/m/n/10 array[][][] []\T1/ptm /m/n/10 (has a [][][]\T1/pcr/m/n/10 dim[][][] []\T1/ptm/m/n/10 at-tribute), the re-sult is Underfull \hbox (badness 2564) in paragraph at lines 47909--47914 []\T1/pcr/m/n/10 arrayInd(which(x), dim(x), dimnames(x))[]\T1/ptm/m/n/10 , name ly a ma-trix whose rows each [690] Underfull \hbox (badness 2818) in paragraph at lines 48014--48020 []\T1/ptm/m/n/10 For a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 vec- tor []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with both []\T1/pcr/m/n/10 FALSE []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 val-ues, []\T1/pcr/m/n/10 which.min(x) []\T1/ptm/m/n/10 and [691] Overfull \hbox (15.18042pt too wide) in paragraph at lines 48049--48049 []\T1/pcr/m/n/9 ## Find the first occurrence, i.e. the first TRUE, if there is at least one:[] [692] Underfull \hbox (badness 1325) in paragraph at lines 48149--48152 []\T1/ptm/m/n/10 Lumley T (2003). ``Stan-dard Non-stan-dard Eval-u-a-tion Rules .'' [][]$\T1/pcr/m/n/10 https : / / developer . [693] [694] [695] [696] [697] [698] Overfull \hbox (36.7804pt too wide) in paragraph at lines 48518--48518 []\T1/pcr/m/n/9 zapsmall(c(x2, Inf), min.d=-Inf) # 0 0 .. 0 Inf -- everything is small wrt Inf[] [699] Underfull \hbox (badness 2846) in paragraph at lines 48582--48586 []\T1/pcr/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas Overfull \hbox (4.38043pt too wide) in paragraph at lines 48622--48622 []\T1/pcr/m/n/9 .packages(all.available = TRUE) # return all available as char acter vector[] [700] Underfull \hbox (badness 3209) in paragraph at lines 48643--48647 []\T1/pcr/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [701]) (./compiler-pkg.tex [702] Chapter 2. [703] Underfull \hbox (badness 2884) in paragraph at lines 107--121 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 options []\T1/ptm/m/n/10 ar-gu-ment can b e used to con-trol com-piler op-er-a-tion. There are cur- Underfull \hbox (badness 10000) in paragraph at lines 107--121 \T1/ptm/m/n/10 rently four op-tions: []\T1/pcr/m/n/10 optimize[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressAll[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 suppressUndef ined[]\T1/ptm/m/n/10 , and [704] [705] [706]) (./datasets-pkg.tex Chapter 3. [707] Underfull \hbox (badness 1199) in paragraph at lines 55--59 []\T1/ptm/m/n/10 Bartholomew DJ (1987). \T1/ptm/m/it/10 La-tent Vari-able Mod-e ls and Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Grif-fin. ISBN [708] [709] [710] [711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 303--303 [] \T1/pcr/m/n/9 plot(ff, data = anscombe, col = "red", pch = 21, bg = "orang e", cex = 1.2,[] [712] Overfull \hbox (4.38043pt too wide) in paragraph at lines 379--379 []\T1/pcr/m/n/9 coplot(accel ~ dist | as.factor(event), data = attenu, show.gi ven = FALSE)[] [713] [714] [715] [716] Overfull \hbox (4.38043pt too wide) in paragraph at lines 639--639 [] \T1/pcr/m/n/9 start = c(lrc = log(.35)), algorithm = "plinear", t race = TRUE)[] [717] Underfull \hbox (badness 4779) in paragraph at lines 727--730 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [718] [719] Underfull \hbox (badness 4779) in paragraph at lines 872--875 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [720] [721] [722] [723] [724] Underfull \hbox (badness 4779) in paragraph at lines 1194--1197 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [725] [726] [727] [728] [729] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1515--1515 []\T1/pcr/m/n/9 plot(names(te), te, type = "h", main = f.tit, xlab = "Eruption time (sec)")[] [730] Underfull \hbox (badness 10000) in paragraph at lines 1603--1606 []\T1/ptm/m/n/10 Finally, []\T1/pcr/m/n/10 freeny []\T1/ptm/m/n/10 is a data fr ame with vari-ables []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lag.q uarterly.revenue[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2903) in paragraph at lines 1603--1606 []\T1/pcr/m/n/10 price.index[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 income.level[]\ T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 market.potential []\T1/ptm/m/n/10 ob-taine d from the above [731] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1702--1702 [] \T1/pcr/m/n/9 xlab = "Hip Angle", ylab = "Knee Angle", main = "\TS1/pcr /m/n/9 '\T1/pcr/m/n/9 gait\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 data : Boy 1")[] [732] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1704--1704 []\T1/pcr/m/n/9 matlines(gait[, -1, 1], gait[, -1, 2], type = "l", lty = 1, co l = adjustcolor("thistle", 1/3))[] [733] [734] Underfull \hbox (badness 4779) in paragraph at lines 1876--1879 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [735] [736] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1981--1981 []\T1/pcr/m/n/9 model1 <- glm(case ~ spontaneous+induced, data = infert, famil y = binomial())[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1989--1989 [] \T1/pcr/m/n/9 model3 <- clogit(case ~ spontaneous+induced+strata(stratum), data = infert)[] [737] [738] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ## Iris versicolor "differs twice as much from I. setosa as fr om I. virginica"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2118--2118 []\T1/pcr/m/n/9 ## equivalence of legacy array (iris3) and data.frame (iris) r epresentation[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2122--2122 [] \T1/pcr/m/n/9 sub(" W.",".Width", dn i3[[2]])))),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2123--2123 [] \T1/pcr/m/n/9 Species = gl(3, 50, labels = sub("S", "s", sub("V", "v", d ni3[[3]]))))[] [739] [740] [741] [742] Underfull \hbox (badness 4779) in paragraph at lines 2351--2354 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [743] [744] [745] [746] [747] [748] [749] [750] [751] Underfull \hbox (badness 4779) in paragraph at lines 2939--2942 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [752] [753] [754] [755] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3209--3209 []\T1/pcr/m/n/9 summary(penguins_raw) # categorical variables are (still) cha racter vectors[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3221--3221 []\T1/pcr/m/n/9 plot(bill_dep ~ bill_len, data = penguins, pch = sym[sex], col = pal[species])[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3229--3229 []\T1/pcr/m/n/9 m <- glm(sex ~ bill_len + bill_dep + body_mass, data = adelie, family = binomial)[] [756] [757] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3341--3341 [] \T1/pcr/m/n/9 replace(names(precip.2), names(precip.2) == "Cincinnati", "Cincinati"))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3345--3345 [] \T1/pcr/m/n/9 setequal(match(c("Bismarck", "Cincinnati", "Pittsburgh"), names(precip)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3347--3347 [] \T1/pcr/m/n/9 identical(names(precip)[-c(45, 46, 52)], names(precip.O)[- c(45, 46, 52)])[] [758] [759] [760] [761] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3575--3575 []\T1/pcr/m/n/9 pairs(quakes, main = "Fiji Earthquakes, N = 1000", cex.main = 1.2, pch = ".")[] [762] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3622--3622 []\T1/pcr/m/n/9 myrandu <- matrix(NA_real_, 400, 3, dimnames = list(NULL, c("x ","y","z")))[] [763] [764] [765] [766] [767] Overfull \hbox (47.58038pt too wide) in paragraph at lines 3937--3937 []\T1/pcr/m/n/9 ## Alaska and Hawaii are placed just off the West Coast (for c ompact map drawing):[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3939--3939 []\T1/pcr/m/n/9 ## state.center2 := version of state.center with "correct" coo rdinates for AK & HI:[] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3940--3940 []\T1/pcr/m/n/9 ## From https://pubs.usgs.gov/gip/Elevations-Distances/elvadis t.html#Geographic%20Centers[] Underfull \hbox (badness 1259) in paragraph at lines 3997--4000 \T1/ptm/m/n/10 Av. Cir-cu-laire, 3, B-1180 BRUS-SELS Cur-rently at [][]$\T1/pcr /m/n/10 https : / / www . sidc . be / SILSO / [768] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4049--4049 []\T1/pcr/m/n/9 ## How to recreate the "old" sunspot.month (R <= 3.0.3) =: sun spot.month.0[] [769] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4106--4106 []\T1/pcr/m/n/9 (t2 <- c(min( end(sm)[1],end(sy)[1]), 12)) # Dec 1983 (will n ot be updated!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/9 ## The yearly series *is* close to the averages of t he monthly one:[] [770] [771] Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 []\T1/ptm/m/n/10 Files for all 182 dis-tricts in 1888 and other years have been avail-able at Underfull \hbox (badness 10000) in paragraph at lines 4210--4216 \T1/pcr/m/n/10 https://oprdata.princeton.edu/archive/pefp/switz.aspx\T1/ptm/m/n /10 . While the Underfull \hbox (badness 4193) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 OPR (Of-fice of Pop-u-la-tion Re-search at Prince-ton Uni-ver-si ty) does not seem to pro- Underfull \hbox (badness 5077) in paragraph at lines 4210--4216 \T1/ptm/m/n/10 vide these any-more, a html-simplified copy of the in-for-ma-tio n page is at [][]$\T1/pcr/m/n/10 https : [772] Underfull \hbox (badness 4779) in paragraph at lines 4265--4268 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 c("nfnGroupedData", "nfGr oupedData", "groupedData", [773] [774] [775] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4481--4481 [] \T1/pcr/m/n/9 xlab = "ToothGrowth data: length vs dose, given type of supplement")[] Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 For some pho-tos of Methuse-lah Walk see [][]$\T1/pcr/m/n/10 h ttps : / / web . archive . org / web / Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 \T1/pcr/m/n/10 20110523225828 / http : / / www . ltrr . arizona . edu / ~hallma n / sitephotos / [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789]) (./grDevices-pkg.tex [790] Chapter 4. [791] [792] [793] [794] Underfull \hbox (badness 4752) in paragraph at lines 299--304 []\T1/ptm/m/n/10 Apart from that, []\T1/pcr/m/n/10 axisTicks() []\T1/ptm/m/n/10 just calls the C func-tion []\T1/pcr/m/n/10 CreateAtVector() []\T1/ptm/m/n/10 in Underfull \hbox (badness 2865) in paragraph at lines 299--304 \T1/ptm/m/n/10 `\T1/ptm/m/sl/10 R\T1/pcr/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack -age func-tion [795] Overfull \hbox (9.78043pt too wide) in paragraph at lines 351--351 []\T1/pcr/m/n/9 aX(2, print(ya <- axisTicks(pu[3:4], log = TRUE))) # 10 20 50 100 (y axis)[] [796] [797] [798] Overfull \hbox (6.78088pt too wide) in paragraph at lines 543--543 []\T1/pcr/m/n/10 cairo_pdf(filename = if(onefile) "Rplots.pdf" else "Rplot%03d .pdf",[] [799] [800] [801] [802] [803] [804] Underfull \hbox (badness 2245) in paragraph at lines 933--938 []\T1/ptm/m/n/10 Hexadecimal string col-ors can be in the long hex-adec-i-mal f orm (e.g., []\T1/pcr/m/n/10 "#rrggbb" []\T1/ptm/m/n/10 or [805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 997--997 []\T1/pcr/m/n/9 names(clmult) <- sapply(clmult, function(x) paste(crgb[,x[1]], collapse = ","))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1004--1004 [] \T1/pcr/m/n/9 lattice::cloud(blue ~ red + green, data = as.data.frame(tc ), col = cNms)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1007--1007 []\T1/pcr/m/n/9 cNms[isC] # "white" "black" "blue" "cyan" "green" "magenta" "r ed" "yellow"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1014--1014 [] \T1/pcr/m/n/9 plot3d (tc, col = cNms, size = 11) # --> rotate w/ mouse; e nlarged corners:[] Underfull \vbox (badness 10000) has occurred while \output is active [806] [807] [808] [809] Underfull \hbox (badness 5175) in paragraph at lines 1253--1255 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [810] [811] [812] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1424--1424 []\T1/pcr/m/n/9 zapsmall(lab <- convertColor(cols, from = "sRGB", to = "Lab", scale.in = 255))[] [813] [814] [815] Underfull \hbox (badness 3302) in paragraph at lines 1685--1689 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of Underfull \hbox (badness 10000) in paragraph at lines 1685--1689 []\T1/pcr/m/n/10 c("LinearGradient", "RadialGradient", "TilingPattern") [816] [817] [818] [819] [820] Underfull \hbox (badness 1565) in paragraph at lines 1976--1981 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 dev.print []\T1/ptm/m/n/10 i s to pro-duce and print a postscript copy. This will not Underfull \hbox (badness 1354) in paragraph at lines 1976--1981 \T1/ptm/m/n/10 sys-tem: see [][][]\T1/pcr/m/n/10 postscript[][][] []\T1/ptm/m/n /10 for how to set this up. Win-dows users may pre-fer to use [821] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2059--2059 []\T1/pcr/m/n/10 dev2bitmap(file, type = "png16m", height = 7, width = 7, res = 72,[] [822] Underfull \hbox (badness 1184) in paragraph at lines 2100--2110 []\T1/ptm/m/n/10 The types avail-able will de-pend on the ver-sion of []\T1/pcr /m/n/10 ghostscript[]\T1/ptm/m/n/10 , but are likely to in- Underfull \hbox (badness 2057) in paragraph at lines 2100--2110 []\T1/pcr/m/n/10 "tiffg4"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffgray"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "tifflzw"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiffp ack"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tiff12nc"[]\T1/ptm/m/n/10 , []\T1/pcr/ m/n/10 "tiff24nc"[]\T1/ptm/m/n/10 , [823] Underfull \hbox (badness 10000) in paragraph at lines 2212--2214 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [824] [825] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2349--2349 []\T1/pcr/m/n/10 embedGlyphs(file, glyphInfo, outfile = file, options = charac ter())[] [826] Underfull \hbox (badness 6758) in paragraph at lines 2400--2403 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are Underfull \hbox (badness 4927) in paragraph at lines 2404--2407 []\T1/pcr/m/n/10 embedGlyphs() []\T1/ptm/m/n/10 is rec-om-mended for []\T1/pcr/ m/n/10 pdf() []\T1/ptm/m/n/10 files that con-tain type-set glyphs (see [827] [828] Underfull \hbox (badness 2326) in paragraph at lines 2523--2533 []\T1/ptm/m/n/10 are given, then it uses those in a call to []\T1/pcr/m/n/10 se tGraphicsEventHandlers []\T1/ptm/m/n/10 to re-place Underfull \hbox (badness 2318) in paragraph at lines 2523--2533 \T1/ptm/m/n/10 any ex-ist-ing han-dlers in the cur-rent de-vice. This is for co m-pat-i-bil-ity with pre-2.12.0 Underfull \hbox (badness 2460) in paragraph at lines 2523--2533 \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions. The cur-rent nor-mal way to set up e vent han-dlers is to set them us-ing Underfull \hbox (badness 1221) in paragraph at lines 2523--2533 []\T1/pcr/m/n/10 setGraphicsEventHandlers []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 setGraphicsEventEnv []\T1/ptm/m/n/10 on one or more graph-ics [829] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2626--2626 []\T1/pcr/m/n/9 dragplot <- function(..., xlim = NULL, ylim = NULL, xaxs = "r" , yaxs = "r") {[] [830] [831] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2711--2711 []\T1/pcr/m/n/10 glyphFont(file, index, family, weight, style, PSname=NA, vari ations=NULL)[] Underfull \hbox (badness 1320) in paragraph at lines 2759--2762 []\T1/ptm/m/n/10 Axis co-or-di-nate set-tings for vari-able fonts. Ei-ther []\T 1/pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , or a call to [832] Underfull \hbox (badness 10000) in paragraph at lines 2768--2772 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 glyphFontList()[]\T1/ptm/m/n/10 , one or more []\T1/pcr/m/n/10 glyphFont()[]\T1/ptm/m/n/10 s. For Underfull \hbox (badness 1917) in paragraph at lines 2768--2772 []\T1/pcr/m/n/10 glyphFontVar()[]\T1/ptm/m/n/10 , one or more named nu-meric va l-ues (see De-tails). [833] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 gray.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE) Overfull \hbox (30.78088pt too wide) in paragraph at lines 2898--2898 []\T1/pcr/m/n/10 grey.colors(n, start = 0.3, end = 0.9, gamma = 2.2, alpha, re v = FALSE)[] [834] [835] [836] [837] [838] Underfull \hbox (badness 10000) in paragraph at lines 3171--3172 [839] [840] [841] [842] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3500--3500 []\T1/pcr/m/n/10 colorConverter(toXYZ, fromXYZ, name, white = NULL, vectorized = FALSE)[] [843] [844] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3584--3584 []\T1/pcr/m/n/9 zapsmall(luv <- convertColor(cols, from = "sRGB", to = "Luv", scale.in = 255))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3585--3585 []\T1/pcr/m/n/9 (hex <- convertColor(luv, from = "Luv", to = hexcolor, scale. out = NULL))[] [845] [846] Underfull \hbox (badness 10000) in paragraph at lines 3744--3750 []\T1/pcr/m/n/10 nclass.FD []\T1/ptm/m/n/10 uses the Freedman-Diaconis choice b ased on the inter-quartile range [847] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3826--3826 []\T1/pcr/m/n/10 palette.colors(n = NULL, palette = "Okabe-Ito", alpha, recycl e = FALSE,[] [848] [849] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3918--3918 []\T1/pcr/m/n/9 (palette(gray(seq(0,.9,length.out = 25)))) # gray scales; prin t old palette[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3938--3938 []\T1/pcr/m/n/9 ## Demonstrate the colors 1:8 in different palettes using a cu stom matplot()[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3945--3945 [] \T1/pcr/m/n/9 matplot(x, type = "l", lwd = 4, lty = 1, col = 1:n, ylab = "", main=main)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3952--3952 []\T1/pcr/m/n/9 palROB <- colorRampPalette(c("red", "darkorange2", "blue"), sp ace = "Lab")[] Underfull \vbox (badness 10000) has occurred while \output is active [850] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4003--4003 []\T1/pcr/m/n/10 hcl.colors(n, palette = "viridis", alpha = NULL, rev = FALSE, fixup = TRUE) Underfull \hbox (badness 8170) in paragraph at lines 4032--4035 []\T1/ptm/m/n/10 the type of palettes to list: []\T1/pcr/m/n/10 "qualitative"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sequential"[]\T1/ptm/m/n/10 , [851] Underfull \hbox (badness 2189) in paragraph at lines 4093--4098 []\T1/ptm/m/n/10 For ex-am-ple, []\T1/pcr/m/n/10 "Dark 3" []\T1/ptm/m/n/10 work s well for shad-ing points or lines in up to five groups, [852] Underfull \hbox (badness 1721) in paragraph at lines 4137--4140 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2019). ``HCL Color Space --- Wikipe dia, The Free En-cy-clo-pe- [853] [854] Underfull \hbox (badness 1112) in paragraph at lines 4297--4301 []\T1/ptm/m/n/10 as `\T1/pcr/m/n/10 "CP1250.enc"\T1/ptm/m/n/10 ' (Cen-tral Eu-r o-pean), []\T1/pcr/m/n/10 "CP1251.enc" [855] [856] Underfull \hbox (badness 1577) in paragraph at lines 4463--4470 \T1/ptm/m/n/10 PostScript fonts fam-i-lies of those names which are in-cluded ( or cloned) in all com-mon [857] Underfull \hbox (badness 1688) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 cod-ings (ex-cept []\T1/pcr/m/n/10 "TeXtext"[]\T1/ptm/m/n/10 ) a gree over that range. Some en-cod-ings are su-per-sets of Underfull \hbox (badness 2012) in paragraph at lines 4524--4543 \T1/ptm/m/n/10 ISO-Latin1. How-ever, if ac-cented and spe-cial char-ac-ters do not come out as you ex- [858] [859] [860] Underfull \hbox (badness 5939) in paragraph at lines 4750--4757 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 family[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 fonts[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1448) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 version[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 paper[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 fg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 pagecentre[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4750--4757 []\T1/pcr/m/n/10 colormodel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 useDingbats[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 useKerning[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fi llOddEven[]\T1/ptm/m/n/10 , [861] [862] [863] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.symbol}) has been already used, duplicate ignored \relax l.4933 \aliasA{symbol}{plotmath}{symbol} [864] [865] [866] [867] [868] [869] [870] [871] Underfull \hbox (badness 1348) in paragraph at lines 5498--5501 []\T1/ptm/m/n/10 The TIFF spec-i-fi-ca-tion, [][]$\T1/pcr/m/n/10 https : / / ww w . iso . org / standard / 34342 . html$[][]\T1/ptm/m/n/10 . See also Overfull \hbox (31.3804pt too wide) in paragraph at lines 5524--5524 []\T1/pcr/m/n/9 ## Not run: dev.print(png, filename = "myplot.png", width = 10 24, height = 768)[] [872] Underfull \hbox (badness 4582) in paragraph at lines 5565--5571 []\T1/ptm/m/n/10 For use with []\T1/pcr/m/n/10 onefile = FALSE[]\T1/ptm/m/n/10 , give a C in-te-ger for-mat such as [873] [874] [875] Underfull \hbox (badness 7344) in paragraph at lines 5804--5806 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso Underfull \hbox (badness 7397) in paragraph at lines 5816--5820 [][][]\T1/pcr/m/n/10 postscriptFonts[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 Devices[][][][]\T1/ptm/m/n/10 , and [][][]\T1/pcr/m/n/10 check.options[][][] []\T1/ptm/m/n/10 which is called from both [876] [877] Underfull \hbox (badness 1552) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Bookman"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "He lvetica"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Helvetica-Narrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/pc r/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5944--5953 []\T1/pcr/m/n/10 "URWBookman"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusMon"[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "NimbusSan" []\T1/ptm/m/n/10 (syn-onym []\T1/p cr/m/n/10 "URWHelvetica"[]\T1/ptm/m/n/10 ), Underfull \hbox (badness 2221) in paragraph at lines 5954--5956 []\T1/ptm/m/n/10 There are also map-pings for []\T1/pcr/m/n/10 "ComputerModern" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ComputerModernItalic" []\T1/ptm/m/n/10 and Underfull \hbox (badness 4686) in paragraph at lines 5985--5991 []\T1/pcr/m/n/10 "Japan1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1HeiMin"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Japan1GothicBBB"[]\T1/ptm/m/n/10 , and []\T1/p cr/m/n/10 "Japan1Ryumin" []\T1/ptm/m/n/10 for [878] Underfull \hbox (badness 5388) in paragraph at lines 6010--6015 []\T1/pcr/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/p cr/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [879] [880] [881] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6222--6222 []\T1/pcr/m/n/10 quartz.save(file, type = "png", device = dev.cur(), dpi = 100 , ...)[] [882] [883] Underfull \hbox (badness 10000) in paragraph at lines 6309--6311 []\T1/ptm/m/n/10 Calling []\T1/pcr/m/n/10 quartz() []\T1/ptm/m/n/10 sets [][][] \T1/pcr/m/n/10 .Device[][][] []\T1/ptm/m/n/10 to []\T1/pcr/m/n/10 "quartz" []\T 1/ptm/m/n/10 for on-screen de-vices and to [884] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6434--6434 [] \T1/pcr/m/n/9 quartzFonts("mono") # the list(mono = ..) sublist o f quartzFonts()[] [885] [886] [887] Overfull \hbox (1.78088pt too wide) in paragraph at lines 6595--6598 \T1/pcr/m/n/10 2015-[]07-[]recording-[]and-[]replaying-[]the-[]graphics-[]engin e-[]display-[]list/$[][]\T1/ptm/m/n/10 . [888] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6685--6685 []\T1/pcr/m/n/9 rgb((0:15)/15, green = 0, blue = 0, names = paste("red", 0:15, sep = "."))[] Underfull \hbox (badness 10000) in paragraph at lines 6699--6702 []\T1/pcr/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [889] [890] Underfull \vbox (badness 10000) has occurred while \output is active [891] [892] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6919--6919 []\T1/pcr/m/n/9 p <- persp(x, y, fxy <- outer(x,y), phi = 20, theta = 15, r = 3, ltheta = -75,[] [893] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6930--6930 []\T1/pcr/m/n/9 ## now some "horizontal rays" (going from center to very left or very right):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 6932--6932 [] \T1/pcr/m/n/9 lines(trans3d(x=seq(x1, x2, by=0.5), y= -0.7, z = z, pmat = p, continuous = CNT),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6934--6934 []\T1/pcr/m/n/9 doHor(-10, 0, z = -0.5, col = 2) # x in [-10, 0] -- to the v ery left : fine[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6935--6935 []\T1/pcr/m/n/9 doHor(-.5, 2, z = -0.52,col = 4) # x in [-0.5, 2] only {to th e right} --> all fine[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 6936--6936 []\T1/pcr/m/n/9 ## but now, x in [-0.5, 20] -- "too far" ==> "wrap around" pro blem (without \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 continuous=TRUE\TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 ):[] [894] [895] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7068--7068 []\T1/pcr/m/n/10 windows(width, height, pointsize, record, rescale, xpinch, yp inch, Overfull \hbox (0.78088pt too wide) in paragraph at lines 7075--7075 []\T1/pcr/m/n/10 win.metafile(filename = "", width = 7, height = 7, pointsize = 12,[] [896] [897] [898] [899] Underfull \hbox (badness 10000) in paragraph at lines 7342--7347 []\T1/ptm/m/n/10 arguments []\T1/pcr/m/n/10 width[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 height[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pointsize[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 record[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 rescale[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1803) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 xpinch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 ypinch[]\T1/ptm/m/n/ 10 , []\T1/pcr/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 canvas[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 gamma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 xpos[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 ypos[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 buffered[]\T1/ ptm/m/n/10 , Underfull \hbox (badness 2941) in paragraph at lines 7342--7347 []\T1/pcr/m/n/10 restoreConsole[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 clickToConfi rm[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 title[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fillOddEven []\T1/ptm/m/n/10 and [900] Overfull \hbox (36.7804pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 windows() # make sure we have the right device type (availabl e on Windows only)[] [901] Underfull \hbox (badness 3590) in paragraph at lines 7489--7492 []\T1/ptm/m/n/10 The \T1/phv/m/n/10 R \T1/ptm/m/n/10 func-tion is a wrap-per fo r two de-vices, one based on Xlib ([][]$\T1/pcr/m/n/10 https : / / Underfull \hbox (badness 2393) in paragraph at lines 7489--7492 \T1/pcr/m/n/10 en . wikipedia . org / wiki / Xlib$[][]\T1/ptm/m/n/10 ) and one us-ing cairo-graph-ics ([][]$\T1/pcr/m/n/10 https : / / www . Overfull \hbox (12.78088pt too wide) in paragraph at lines 7500--7500 [] \T1/pcr/m/n/10 fonts, family, xpos, ypos, title, type, antialias, symbol family)[] [902] Underfull \hbox (badness 1189) in paragraph at lines 7565--7567 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [903] Underfull \hbox (badness 10000) in paragraph at lines 7670--7672 []\T1/pcr/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [904] Underfull \hbox (badness 10000) in paragraph at lines 7714--7721 []\T1/ptm/m/n/10 Problems with in-cor-rect ren-der-ing of sym-bols (e.g., of [] \T1/pcr/m/n/10 quote(pi) []\T1/ptm/m/n/10 and Underfull \hbox (badness 2469) in paragraph at lines 7714--7721 []\T1/pcr/m/n/10 expression(10^degree)[]\T1/ptm/m/n/10 ) have been seen on Linu x sys-tems which have the Wine [905] Underfull \hbox (badness 5607) in paragraph at lines 7796--7800 []\T1/pcr/m/n/10 type = "Xlib" []\T1/ptm/m/n/10 sup-ports `True-Color', `Pseu-d o-Color', `GrayScale', []\T1/pcr/m/n/10 StaticGray []\T1/ptm/m/n/10 and [906] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7848--7848 [] \T1/pcr/m/n/9 function(...) grDevices::X11.options(width = 8, height = 6, xpos = 0,[] [907] [908] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8021--8021 []\T1/pcr/m/n/9 op <- options(warn = 2)# ==> warnings would be errors, we supp ress the one "we know":[] [909] Underfull \hbox (badness 1231) in paragraph at lines 8060--8062 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., []\T1/pcr/m/n/10 number[i] []\T1/ptm/m/n/10 is the mul-ti-plic-ity of Overfull \hbox (9.78043pt too wide) in paragraph at lines 8087--8087 []\T1/pcr/m/n/9 xy <- data.frame(x = round(sort(stats::rnorm(100))), y = stats ::rnorm(100))[] [910] [911] [912]) (./graphics-pkg.tex Chapter 5. Underfull \hbox (badness 4647) in paragraph at lines 17--19 []\T1/ptm/m/n/10 For a com-plete list of func-tions with in-di-vid-ual help pag es, use []\T1/pcr/m/n/10 library(help = [913] [914] [915] [916] [917] [918] [919] Overfull \hbox (6.05087pt too wide) in paragraph at lines 457--457 [] \T1/pcr/m/n/10 gap.axis <- if(perpendicular(side, las)) 0.25 else 1[] Underfull \hbox (badness 4048) in paragraph at lines 489--495 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 at = NULL[]\T1/ptm/m/n/10 , pretty tick mark lo-ca-tions are com-puted in-ter-nally (the same way [920] [921] Overfull \hbox (47.58038pt too wide) in paragraph at lines 588--588 []\T1/pcr/m/n/9 ## now shrink the window (in x- and y-direction) and observe t he axis labels drawn[] [922] Overfull \hbox (15.18042pt too wide) in paragraph at lines 705--705 []\T1/pcr/m/n/9 axis.Date(3, at = as.integer(as.Date("2023-04-01")), col.axis = "darkgreen")[] [923] Overfull \hbox (15.18042pt too wide) in paragraph at lines 720--720 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.POSIXct("2022-10-01 00:01:30"), col.ax is = "orange")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 725--725 []\T1/pcr/m/n/9 axis.POSIXct(3, at = as.numeric(as.POSIXct("2022-10-01 00:00:3 0")) + 0.25,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 726--726 [] \T1/pcr/m/n/9 col.axis = "forestgreen", col = "darkgreen", m gp = c(3,2,0))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 732--732 []\T1/pcr/m/n/9 plot(data.frame(HST, y = 1), xaxt = "n", xlab = "Hawaii Standa rd Time (HST)")[] Underfull \hbox (badness 10000) in paragraph at lines 759--763 []\T1/ptm/m/n/10 numeric vec-tor of length three, de-fault-ing to [][][]\T1/pcr /m/n/10 par[][][]("xaxp") []\T1/ptm/m/n/10 or Underfull \hbox (badness 3250) in paragraph at lines 759--763 [][][]\T1/pcr/m/n/10 par[][][]("yaxp") []\T1/ptm/m/n/10 de-pend-ing on the []\T 1/pcr/m/n/10 side []\T1/ptm/m/n/10 ar-gu-ment ([]\T1/pcr/m/n/10 par("xaxp") []\ T1/ptm/m/n/10 if [924] [925] Overfull \hbox (4.38043pt too wide) in paragraph at lines 846--846 [] \T1/pcr/m/n/9 axp = c(get_axp(usr.i), n = 3), log = TRUE, n intLog = 5))[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 884--884 [] \T1/pcr/m/n/10 add = FALSE, ann = !add && par("ann"), args.legend = NULL,[] [926] [927] Underfull \hbox (badness 2181) in paragraph at lines 984--990 [][][]\T1/pcr/m/n/10 order[][][](height[..], decreasing = )[]\T1/ptm/m/n/10 , where []\T1/pcr/m/n/10 []\T1/ptm/m/n/10 is []\T1/pcr/m/n/10 TRUE []\T1/pt m/m/n/10 or [928] Underfull \hbox (badness 10000) in paragraph at lines 1054--1058 [][][]\T1/pcr/m/n/10 plot[][][](..., type = "h")[]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 dotchart[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 hist[][][] []\T1 /ptm/m/n/10 for bars of a \T1/ptm/m/it/10 con-tin-u-ous \T1/ptm/m/n/10 vari-abl e. Overfull \hbox (133.98029pt too wide) in paragraph at lines 1071--1071 [] \T1/pcr/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1073--1073 []\T1/pcr/m/n/9 (xt <- xtabs(Freq ~ Survived + Class + Sex, d.Titanic, subset = Age=="Adult"))[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1075--1075 []\T1/pcr/m/n/9 mosaicplot(xt[,,"Male"], main = "mosaicplot(Freq ~ Class + Sur vived, *)", color=TRUE)[] [929] [930] [931] [932] [933] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1373--1373 []\T1/pcr/m/n/9 # *add* notches (somewhat funny here <--> warning "notches .. outside hinges"):[] [934] [935] [936] Underfull \hbox (badness 3375) in paragraph at lines 1574--1576 []\T1/ptm/m/n/10 whisker line type (de-fault: []\T1/pcr/m/n/10 "dashed"[]\T1/pt m/m/n/10 ), [937] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1652--1652 []\T1/pcr/m/n/9 boxplot(z, col.axis = "skyblue3", main = "boxplot(*, col.axi s=..,main=..)")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1653--1653 []\T1/pcr/m/n/9 plot(z[[1]], col.axis = "skyblue3", main = "plot(*, col.axi s=..,main=..)")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1659--1659 []\T1/pcr/m/n/9 splus <- list(boxwex = 0.4, staplewex = 1, outwex = 1, boxfill = "grey40",[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1660--1660 [] \T1/pcr/m/n/9 medlwd = 3, medcol = "white", whisklty = 3, outl ty = 1, outpch = NA)[] [938] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1693--1693 [] \T1/pcr/m/n/10 yaxlabels = NULL, xlim = NULL, ylim = c(0, 1), weights = NU LL, ...)[] [939] [940] [941] [942] Underfull \hbox (badness 10000) in paragraph at lines 1973--1979 [][][]\T1/pcr/m/n/10 contourLines[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 filled.contour[][][] []\T1/ptm/m/n/10 for color-filled con-tours, [][][]\T1/pcr /m/n/10 contourplot[][][] []\T1/ptm/m/n/10 (and [943] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1993--1993 []\T1/pcr/m/n/9 contour(x, x, z, ylim = c(-6, 6), nlevels = 20, lty = 2, metho d = "simple",[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2005--2005 []\T1/pcr/m/n/9 contour(z, levels=levs[-c(1,length(levs))], col = 1:5, lwd = 1 :3 *1.5, lty = 1:3)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2021--2021 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2030--2030 []\T1/pcr/m/n/9 plot(x = 0, y = 0, type = "n", xlim = rx, ylim = ry, xlab = "" , ylab = "")[] [944] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2115--2115 []\T1/pcr/m/n/10 coplot(formula, data, given.values, panel = points, rows, col umns, [945] [946] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2247--2247 []\T1/pcr/m/n/9 coplot(lat ~ long | depth, data = quakes, given.values = given .depth, rows = 1)[] [947] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2252--2252 []\T1/pcr/m/n/9 coplot(ll.dm, data = quakes, number = c(4, 7), show.given = c( TRUE, FALSE))[] [948] [949] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2426--2426 []\T1/pcr/m/n/10 dotchart(x, labels = NULL, groups = NULL, gdata = NULL, offse t = 1/8, Overfull \hbox (54.78088pt too wide) in paragraph at lines 2427--2427 [] \T1/pcr/m/n/10 ann = par("ann"), xaxt = par("xaxt"), frame.plot = T RUE, log = "",[] [950] Underfull \hbox (badness 1430) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/pcr/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [951] Overfull \hbox (78.78088pt too wide) in paragraph at lines 2543--2543 [] \T1/pcr/m/n/10 color.palette = function(n) hcl.colors(n, "YlO rRd", rev = TRUE),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 2545--2545 [] \T1/pcr/m/n/10 plot.title, plot.axes, key.title, key.axes, ke y.border = NULL,[] Underfull \hbox (badness 1009) in paragraph at lines 2555--2562 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [952] [953] Underfull \hbox (badness 7273) in paragraph at lines 2639--2643 [][][]\T1/pcr/m/n/10 contour[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 image [][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 hcl.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gray.colors[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 palette[][][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 contourplot[][][] []\T1/p tm/m/n/10 and [954] [955] [956] [957] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2900--2900 []\T1/pcr/m/n/9 ## maybe change the desired number of tick marks: par(lab = c (mx, my, 7))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2921--2921 []\T1/pcr/m/n/9 plot(8:270, log="xy") ; grid() # at (1, 10, 100); if preferrin g "all" grid lines:[] [958] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2960--2960 [] \T1/pcr/m/n/10 density = NULL, angle = 45, col = "lightgray", border = NULL,[] [959] [960] Underfull \hbox (badness 1226) in paragraph at lines 3091--3095 \T1/pcr/m/n/10 1)[]\T1/ptm/m/n/10 , they are the rel-a-tive fre-quen-cies []\T1 /pcr/m/n/10 counts/n []\T1/ptm/m/n/10 and in gen-eral sat-isfy Overfull \hbox (15.18042pt too wide) in paragraph at lines 3147--3147 []\T1/pcr/m/n/9 ## Extreme outliers; the "FD" rule would take very large numbe r of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 breaks\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3151--3151 []\T1/pcr/m/n/9 length(hh$breaks) ## typically 1 million -- though 1e6 was "a suggestion only"[] [961] Underfull \hbox (badness 10000) in paragraph at lines 3213--3216 [][][]\T1/ptm/m/n/10 graphical pa-ram-e-ters[][][], or ar-gu-ments to [][][]\T1 /pcr/m/n/10 hist.default[][][] []\T1/ptm/m/n/10 such as [962] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3264--3264 []\T1/pcr/m/n/9 ## The default fuzz in hist.default() "kills" this, with a "w rong" message:[] [963] [964] [965] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3429--3429 []\T1/pcr/m/n/9 identifyPch <- function(x, y = NULL, n = length(x), plot = FAL SE, pch = 19, ...)[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 3434--3434 [] \T1/pcr/m/n/9 ans <- identify(x[!sel], y[!sel], labels = which(!sel) , n = 1, plot = plot, ...)[] [966] [967] Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 useRaster []\T1/ptm/m/n/10 is not spec-i-f ied, raster im-ages are used when the Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 getOption[][][]("preferRaster") []\T1/ptm/m/n/10 is true, the grid is reg-u-lar and ei-ther Underfull \hbox (badness 10000) in paragraph at lines 3576--3581 [][][]\T1/pcr/m/n/10 dev.capabilities[][][]("rasterImage")$rasterImage []\T1/pt m/m/n/10 is []\T1/pcr/m/n/10 "yes" []\T1/ptm/m/n/10 or it is Overfull \hbox (31.3804pt too wide) in paragraph at lines 3611--3611 []\T1/pcr/m/n/9 # Visualize as matrix. Need to transpose matrix and then flip it horizontally:[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3613--3613 []\T1/pcr/m/n/9 imageM <- function(m, grid = max(dim(m)) <= 25, asp = (nrow(m) -1)/(ncol(m)-1), ...) {[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 3616--3616 [] \T1/pcr/m/n/9 axis(side, at=at, labels=as.character(j+1L), col="gray ", col.axis=1, ...)[] [968] [969] [970] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3777--3777 []\T1/pcr/m/n/9 barplot(yhist$counts, axes = FALSE, xlim = c(0, top), space = 0, horiz = TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 3796--3796 [] \T1/pcr/m/n/10 box.lwd = par("lwd"), box.lty = par("lty"), box.col = par("fg"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3800--3800 [] \T1/pcr/m/n/10 text.font = NULL, merge = do.lines && has.pch, trace = FALSE,[] [971] [972] [973] Overfull \hbox (36.7804pt too wide) in paragraph at lines 3989--3989 [] \T1/pcr/m/n/9 text (1, y.leg[i] - 0.1, paste("cex=", formatC(cexv[i])), c ex = 0.8, adj = 0)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3990--3990 [] \T1/pcr/m/n/9 legend(3, y.leg[i], leg.txt, pch = "sSvV", col = c(1, 3), ce x = cexv[i])[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3994--3994 [] \T1/pcr/m/n/9 cex = 1+(-1:2)/8, trace = TRUE)# trace: show computed l engths & coords[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4004--4004 [] \T1/pcr/m/n/9 title("legend(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 top\TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 , lty = c(2, -1, 1), pch = c(NA, 3, 4), merge = TRUE)",[] [974] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4035--4035 [] \T1/pcr/m/n/9 "text(c(3,3),2:3,\"c(rect(...)\")"), adj = c(0, 0.3))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4061--4061 []\T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Filled\TS1/pcr/m/n/9 ' \T1/pc r/m/n/9 boxes -- see also example(barplot) which may call legend(*, fill=)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4063--4063 []\T1/pcr/m/n/9 legend("topright", rownames(VADeaths), fill = gray.colors(nrow (VADeaths)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4074--4074 []\T1/pcr/m/n/9 legend("bottomright", paste("sin(", 1:7, "pi * x)"), col = 1:7 , lty = 1:7,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4089--4089 []\T1/pcr/m/n/9 legend(.4,1, "sin(c x)", pch = 21, pt.bg = "white", lty = 1, c ol = "blue")[] Underfull \vbox (badness 10000) has occurred while \output is active [975] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4097--4097 []\T1/pcr/m/n/9 legend("topleft", "(x,y)", pch=1, title= "topleft, inset = .05", inset = .05)[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4099--4099 []\T1/pcr/m/n/9 legend("topright", "(x,y)", pch=1, title= "topright, inset = .02",inset = .02)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4107--4107 [] \T1/pcr/m/n/9 plot(1, type = "n", axes = FALSE, ann = FALSE); title(paste ("text.font =",i))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4117--4117 []\T1/pcr/m/n/9 legend("bottomleft", c("This legend", "has", "optimally sized" , "columns."),[] [976] Underfull \hbox (badness 10000) in paragraph at lines 4180--4184 [][][]\T1/pcr/m/n/10 lines.formula[][][] []\T1/ptm/m/n/10 for the for-mula meth od; [][][]\T1/pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , par-tic-u-larly for []\ T1/pcr/m/n/10 type %in% [977] Overfull \hbox (6.78088pt too wide) in paragraph at lines 4293--4293 [] \T1/pcr/m/n/10 log = "", ..., add = FALSE, verbose = getOption("verb ose"))[] [978] [979] [980] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4443--4443 []\T1/pcr/m/n/9 nd <- length(dv <- seq(as.Date("1959-02-21"), by = "weeks", le ngth.out = 100))[] [981] Underfull \hbox (badness 3930) in paragraph at lines 4530--4532 []\T1/ptm/m/n/10 The mag-ni-fi-ca-tion to be used for axis an-no-ta-tion, as a mul-ti-ple of [982] [983] [984] [985] [986] Underfull \hbox (badness 1286) in paragraph at lines 4844--4847 []\T1/ptm/m/n/10 which draws the ti-tle. You may want to spec-ify []\T1/pcr/m/n /10 oma []\T1/ptm/m/n/10 when chang-ing Underfull \hbox (badness 3229) in paragraph at lines 4852--4857 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [987] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4949--4949 []\T1/pcr/m/n/9 pairs(USJudgeRatings, lower.panel = panel.smooth, upper.panel = panel.cor,[] [988] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4954--4954 [] \T1/pcr/m/n/9 main = "Lengths and Widths in [log]", line.main=1.5, oma =c(2,2,3,2))[] [989] Underfull \hbox (badness 1264) in paragraph at lines 5215--5228 \T1/ptm/m/n/10 func-tions such as [][][]\T1/pcr/m/n/10 plot.default[][][][]\T1/ ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.window[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 points[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lines[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 abline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 axis[][][][]\T1/ptm/m/n/10 , [990] [991] [992] [993] Underfull \hbox (badness 10000) in paragraph at lines 5481--5484 [994 ] Underfull \hbox (badness 10000) in paragraph at lines 5542--5544 [995 ] [996] [997] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5796--5796 []\T1/pcr/m/n/9 c(prof.pilots = 16, lawyers = 11, farmers = 10, salesmen = 9, physicians = 9,[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5797--5797 [] \T1/pcr/m/n/9 mechanics = 6, policemen = 6, managers = 6, engineers = 5, t eachers = 4,[] Underfull \vbox (badness 10000) has occurred while \output is active [998] [999] [1000] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6015--6015 []\T1/pcr/m/n/9 points(trans3d(xy[,1], xy[,2], z = 6, pmat = res), co l = 2, pch = 16)[] [1001] [1002] [1003] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6164--6164 []\T1/pcr/m/n/9 pie(c(Sky = 78, "Sunny side of pyramid" = 17, "Shady side of p yramid" = 5),[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 6165--6165 [] \T1/pcr/m/n/9 init.angle = 315, col = c("deepskyblue", "yellow", "yellow 3"), border = FALSE)[] [1004] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.plot}) ha s been already used, duplicate ignored \relax l.6231 \aliasA{plot}{plot.default}{plot} Overfull \hbox (78.78088pt too wide) in paragraph at lines 6243--6243 [] \T1/pcr/m/n/10 log = "", lim2 = FALSE, main = NULL, sub = NULL, xlab = NULL, ylab = NULL,[] Underfull \hbox (badness 7981) in paragraph at lines 6276--6281 []\T1/ptm/m/n/10 logical, rel-e-vant only when at least one of []\T1/pcr/m/n/10 xlim []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ylim []\T1/ptm/m/n/10 are Underfull \hbox (badness 10000) in paragraph at lines 6276--6281 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 and hence cor-re-spond-ing axis lim-its are com-puted from Underfull \hbox (badness 4279) in paragraph at lines 6276--6281 [][][]\T1/pcr/m/n/10 range[][][]([])[]\T1/ptm/m/n/10 . When true, \T1/ptm/m/it/10 both \T1/ptm/m/n/10 x- [1005] [1006] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6412--6412 []\T1/pcr/m/n/9 plot(y ~ x, log="x") # --> Warning: 2 x values <= 0 omitted f rom log..plot[] [1007] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6415--6415 [] \T1/pcr/m/n/9 # nice - reasonable y- axis [0, 0.8][] [1008] [1009] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6597--6597 []\T1/pcr/m/n/9 plot(PlantGrowth$group, axes = FALSE, main = "no axes") # ext remely silly[] [1010] [1011] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6721--6721 [] \T1/pcr/m/n/10 main = paste("Histogram of", paste(x$xname, co llapse = "\n")),[] [1012] [1013] [1014] [1015] [1016] Underfull \hbox (badness 10000) in paragraph at lines 7033--7035 []\T1/ptm/m/n/10 background (fill) color for the open plot sym-bols 21:25: see [1017] Underfull \hbox (badness 1028) in paragraph at lines 7126--7128 []\T1/ptm/m/n/10 character (or sym-bol) ex-pan-sion: a nu-mer-i-cal vec-tor. Th is works as a mul-ti-ple of [1018] Overfull \hbox (31.57222pt too wide) in paragraph at lines 7167--7168 [][] [1019 ] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7262--7262 []\T1/pcr/m/n/9 plot(x, sin(x), type = "o", pch = 21, bg = par("bg"), col = "b lue", cex = .6,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7266--7266 []\T1/pcr/m/n/9 ## Illustration of pch = 0:25 (as in the figure shown above in PDF/HTML help)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7267--7267 []\T1/pcr/m/n/9 ## Not run: png("pch.png", height = 0.7, width = 7, res = 100, units = "in")[] [1020] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7291--7291 [] \T1/pcr/m/n/9 plot(rx, ry, type = "n", axes = FALSE, xlab = "", ylab = "", main = main)[] [1021] Underfull \hbox (badness 10000) in paragraph at lines 7413--7415 []\T1/ptm/m/n/10 The code im-ple-ment-ing poly-gon shad-ing was do-nated by Kev in Buhr [1022] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7444--7444 [] \T1/pcr/m/n/9 polygon(x, y, xpd = xpd, col = "orange", lty = 2, lwd = 2, b order = "red")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7450--7450 []\T1/pcr/m/n/9 yy <- c(c(0, cumsum(stats::rnorm(n))), rev(c(0, cumsum(stats:: rnorm(n)))))[] [1023] Underfull \hbox (badness 2600) in paragraph at lines 7507--7509 []\T1/ptm/m/n/10 character value spec-i-fy-ing the path fill mode: ei-ther []\T 1/pcr/m/n/10 "winding" []\T1/ptm/m/n/10 or [1024] [1025] [1026] [1027] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7743--7743 []\T1/pcr/m/n/9 rect(100+i, 300+i, 150+i, 380+i, col = rainbow(11, start = 0.7 , end = 0.1))[] [1028] [1029] [1030] [1031] [1032] [1033] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8136--8136 []\T1/pcr/m/n/9 Lab.palette <- colorRampPalette(c("blue", "orange", "red"), sp ace = "Lab")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8140--8140 []\T1/pcr/m/n/9 ## label the 20 very lowest-density points,the "outliers" (wit h obs.number):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8152--8152 []\T1/pcr/m/n/9 pairs(y, panel = function(...) smoothScatter(..., nrpoints = 0 , add = TRUE),[] [1034] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8179--8179 [] \T1/pcr/m/n/10 xlim = NULL, ylim = c(0, 1), axes = TRUE, weights = NULL, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8188--8188 [] \T1/pcr/m/n/10 subset = NULL, weights = NULL, drop.unused.levels = FALSE)[] [1035] [1036] [1037] [1038] [1039] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8504--8504 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8507--8507 []\T1/pcr/m/n/9 stars(USJudgeRatings, locations = c(0, 0), scale = FALSE, radi us = FALSE,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8511--8511 [] \T1/pcr/m/n/9 draw.segments = TRUE, col.segments = 0, col.stars = 1:10 , key.loc = 0:1,[] [1040] [1041] [1042] Overfull \hbox (30.78088pt too wide) in paragraph at lines 8699--8699 []\T1/pcr/m/n/10 strwidth(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...) Overfull \hbox (36.78088pt too wide) in paragraph at lines 8700--8700 []\T1/pcr/m/n/10 strheight(s, units = "user", cex = NULL, font = NULL, vfont = NULL, ...)[] [1043] [1044] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8804--8804 []\T1/pcr/m/n/10 sunflowerplot(formula, data = NULL, xlab = NULL, ylab = NULL, ...,[] [1045] Underfull \hbox (badness 1112) in paragraph at lines 8863--8867 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 number[i] == 1[]\T1/ptm/m/n/10 , a (sligh tly en-larged) usual plot-ting sym-bol ([]\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 ) is drawn. For [1046] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8927--8927 []\T1/pcr/m/n/9 sunflowerplot(iris[, 3:4], cex = .2, cex.fact = 1, size = .035 , seg.lwd = .8)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8942--8942 []\T1/pcr/m/n/9 sunflowerplot(rnorm(100), rnorm(100), number = rpois(n = 100, lambda = 2),[] [1047] [1048] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9083--9083 []\T1/pcr/m/n/9 text(x, y, apply(format(round(z3, digits = 2)), 1, paste, coll apse = ","),[] [1049] [1050] [1051] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9281--9281 [] \T1/pcr/m/n/9 "Le franais, c\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 est facile: Rgles, Libert, Egalit, Fraternit...")[] Underfull \hbox (badness 1215) in paragraph at lines 9309--9311 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/pcr/m /n/10 par(c("font.sub", [1052] Underfull \hbox (badness 1584) in paragraph at lines 9343--9349 []\T1/ptm/m/n/10 The po-si-tions of []\T1/pcr/m/n/10 xlab[]\T1/ptm/m/n/10 , []\ T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sub []\T1/ptm/m/n/10 a re []\T1/pcr/m/n/10 line []\T1/ptm/m/n/10 (de-fault for []\T1/pcr/m/n/10 xlab [ ]\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 ylab []\T1/ptm/m/n/10 be-ing pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units}) h as been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.units.1}) has been already used, duplicate ignored \relax l.9392 \HeaderA{units}{Graphical Units}{units} [1053] Underfull \hbox (badness 1205) in paragraph at lines 9457--9459 []\T1/ptm/m/n/10 vectors con-tain-ing the co-or-di-nates of the ver-tices of th e poly-gon. See [1054] [1055] Overfull \hbox (25.98041pt too wide) in paragraph at lines 9578--9578 []\T1/pcr/m/n/9 arrows(res$x[nr-3], res$y[nr-3], res$x[nr], res$y[nr], code = 2, length = 0.1)[] [1056]) (./grid-pkg.tex Chapter 6. [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] Underfull \hbox (badness 4859) in paragraph at lines 638--641 []\T1/ptm/m/n/10 Modification of the view-port (should all be valid ar-gu-ments to the [1067] [1068] [1069] [1070] [1071] [1072] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1032--1032 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1073] [1074] [1075] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1243--1243 [] \T1/pcr/m/n/9 vpList(vpStack(viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1244--1244 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="B"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1245--1245 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1246--1246 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="C"),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1247--1247 [] \T1/pcr/m/n/9 viewport(x=0.1, y=0.1, width=0.5 , height=0.5,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1248--1248 [] \T1/pcr/m/n/9 just=c("left", "bottom" ), name="D")),[] [1076] [1077] [1078] [1079] Underfull \hbox (badness 3219) in paragraph at lines 1507--1510 []\T1/ptm/m/n/10 Both func-tions cre-ate a cir-cle grob (a graph-i-cal ob-ject de-scrib-ing a cir-cle), but only [1080] [1081] [1082] [1083] [1084] [1085] [1086] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1895--1895 [] \T1/pcr/m/n/9 do.call("grid.curve", c(list(x1=.25, y1=.25, x2=.75, y2=.75) , list(...)))[] [1087] [1088] [1089] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2109--2109 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.25, y=.75, gp=gpar(fill="bla ck"), name="r1")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2110--2110 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.5, y=.5, gp=gpar(fill="grey" ), name="r2")[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 2111--2111 []\T1/pcr/m/n/9 grid.rect(width=.4, height=.4, x=.75, y=.25, gp=gpar(fill="whi te"), name="r3")[] [1090] Underfull \hbox (badness 2961) in paragraph at lines 2146--2151 []\T1/ptm/m/n/10 The meth-ods for grob and gTree call the generic hook func-tio ns []\T1/pcr/m/n/10 preDrawDetails[]\T1/ptm/m/n/10 , [1091] Underfull \hbox (badness 4479) in paragraph at lines 2234--2237 []\T1/ptm/m/n/10 Both func-tions call []\T1/pcr/m/n/10 editDetails []\T1/ptm/m/ n/10 to al-low a grob to per-form cus-tom ac-tions and [1092] [1093] [1094] Underfull \hbox (badness 2894) in paragraph at lines 2441--2448 []\T1/ptm/m/n/10 Both func-tions cre-ate a frame grob (a graph-i-cal ob-ject de -scrib-ing a frame), but only [1095] [1096] [1097] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2597--2597 []\T1/pcr/m/n/10 getGrob(gTree, gPath, strict = FALSE, grep = FALSE, global = FALSE)[] [1098] Underfull \hbox (badness 1014) in paragraph at lines 2683--2688 []\T1/ptm/m/n/10 The jus-ti-fi-ca-tion of the glyphs rel-a-tive to the ([]\T1/p cr/m/n/10 x[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) lo-ca-tion. Can be [1099] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2729--2729 []\T1/pcr/m/n/10 grid.grabExpr(expr, warn = 2, wrap = wrap.grobs, wrap.grobs = FALSE,[] [1100] [1101] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2891--2891 [] \T1/pcr/m/n/9 children=gList(grob(name="child", vp ="vp1::vp2")),[] [1102] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2923--2923 [] \T1/pcr/m/n/10 default.units = "npc", gp=gpar(col = "grey"), vp = NULL)[] [1103] [1104] Underfull \hbox (badness 10000) in paragraph at lines 3106--3108 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1105] Underfull \hbox (badness 1077) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 Another pos-si-ble use of []\T1/pcr/m/n/10 grid.group() []\T1/ ptm/m/n/10 is to spec-ify both []\T1/pcr/m/n/10 src []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 dst []\T1/ptm/m/n/10 and com-bine Underfull \hbox (badness 1622) in paragraph at lines 3123--3142 []\T1/ptm/m/n/10 is only drawn where it is NOT over-lapped by []\T1/pcr/m/n/10 src[]\T1/ptm/m/n/10 . The fol-low-ing (ex-tended) Porter- Underfull \hbox (badness 2057) in paragraph at lines 3123--3142 []\T1/pcr/m/n/10 "multiply"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "screen"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "overlay"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "darke n"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lighten"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "color.dodge"[]\T1/ptm/m/n/10 , [1106] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3195--3195 [] \T1/pcr/m/n/9 mask <- as.mask(rectGrob(gp=gpar(col=NA, fill="grey50")), ty pe="luminance")[] [1107] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3310--3310 [] \T1/pcr/m/n/9 pushViewport(viewport(layout=grid.layout(1, 1, widths=unit(1 , "inches"),[] [1108] [1109] [1110] [1111] [1112] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3625--3625 [] \T1/pcr/m/n/9 children=vpList(viewpor t(name="vp2"))))[] [1113] [1114] Overfull \hbox (52.98038pt too wide) in paragraph at lines 3721--3721 []\T1/pcr/m/n/9 pushViewport(viewport(x=0, y=0, width=0.25, height=0.25, just= c("left", "bottom")))[] Underfull \hbox (badness 2799) in paragraph at lines 3758--3764 []\T1/ptm/m/n/10 There are two hooks called []\T1/pcr/m/n/10 "before.grid.newpa ge" []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 "grid.newpage" []\T1/ptm/m/n/10 (see [1115] [1116] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3850--3850 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3857--3857 [] \T1/pcr/m/n/10 force.width = FALSE, force.height = FALSE, border = NULL,[] [1117] [1118] [1119] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4059--4059 [] \T1/pcr/m/n/9 "Nested rectangles, outer clockwise, inner ant i-clockwise")[] [1120] Overfull \hbox (25.98041pt too wide) in paragraph at lines 4074--4074 [] \T1/pcr/m/n/9 "Overlapping rectangles, one clockwise, other anti-clockwise")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4095--4095 []\T1/pcr/m/n/9 # Not specifying pathId will treat all points as part of the s ame path, thus[] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] [1130] [1131] [1132] Underfull \hbox (badness 1067) in paragraph at lines 4845--4848 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1133] [1134] [1135] [1136] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5061--5061 [] \T1/pcr/m/n/9 width=unit(1, "inches"), height=un it(1, "inches")))[] [1137] [1138] Underfull \hbox (badness 7256) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1139] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5263--5263 []\T1/pcr/m/n/9 grid.text(quote(frac(e^{-x^2/2}, sqrt(2*pi))), x=x, y=y, rot=s tats::runif(20, -45,45),[] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \hbox (badness 2726) in paragraph at lines 5652--5656 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 gridCoords []\T1/ptm/m/n/10 a nu-meric ve c-tor. For []\T1/pcr/m/n/10 gridGrobCoords []\T1/ptm/m/n/10 a list Underfull \hbox (badness 1231) in paragraph at lines 5652--5656 \T1/ptm/m/n/10 of []\T1/pcr/m/n/10 "GridCoords" []\T1/ptm/m/n/10 ob-jects. For []\T1/pcr/m/n/10 gridGTreeCoords []\T1/ptm/m/n/10 a list of ei-ther [1146] Underfull \hbox (badness 2080) in paragraph at lines 5734--5739 []\T1/ptm/m/n/10 Either a []\T1/pcr/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1147] [1148] [1149] Underfull \hbox (badness 10000) in paragraph at lines 5914--5916 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 grid.legend()[]\T1/ptm/m/n/10 : all the a r-gu-ments above are passed to [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7015--7015 []\T1/pcr/m/n/9 unitType(min(unit(1, "in"), unit(1, "npc") + unit(1, "mm")), r ecurse=TRUE)[] [1167] [1168] Overfull \hbox (54.78088pt too wide) in paragraph at lines 7135--7135 []\T1/pcr/m/n/10 viewportTransform(group, shear=groupShear(), flip=groupFlip() , device=TRUE) [1169] Underfull \hbox (badness 1867) in paragraph at lines 7237--7239 []\T1/ptm/m/n/10 This func-tion can be used to gen-er-ate a view-port path for use in []\T1/pcr/m/n/10 downViewport []\T1/ptm/m/n/10 or [1170] Underfull \hbox (badness 10000) in paragraph at lines 7274--7280 [][][]\T1/pcr/m/n/10 viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 push Viewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 popViewport[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 seekViewport[][][][]\T1/ptm/m/n/10 , [1171] [1172] [1173] Underfull \vbox (badness 10000) has occurred while \output is active [1174] [1175] [1176] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7610--7610 []\T1/pcr/m/n/9 invisible(lapply(trace, function(t) grid.lines(t$x, t$y, gp=gp ar(col="red"))))[] [1177]) (./methods-pkg.tex [1178] Chapter 7. [1179] [1180] Underfull \hbox (badness 1688) in paragraph at lines 169--174 []\T1/ptm/m/n/10 func-tion. See that doc-u-men-ta-tion also for de-tails of how co-erce meth-ods work. Use [1181] [1182] [1183] Underfull \hbox (badness 1348) in paragraph at lines 399--402 [][][]\T1/pcr/m/n/10 GroupGenericFunctions[][][] []\T1/ptm/m/n/10 for other in- for-ma-tion about group generic func-tions; [][]Meth- [1184] [1185] Overfull \hbox (15.18042pt too wide) in paragraph at lines 566--566 []\T1/pcr/m/n/9 ## vector. The next method will always be the default, usuall y a primitive.[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 576--576 []\T1/pcr/m/n/9 ## For arithmetic and one rnum with anything, callNextMethod w ith no arguments[] [1186] Overfull \hbox (4.38043pt too wide) in paragraph at lines 627--627 []\T1/pcr/m/n/9 ## Simple examples to illustrate callNextMethod with and witho ut arguments[] Underfull \vbox (badness 10000) has occurred while \output is active [1187] Overfull \hbox (25.98041pt too wide) in paragraph at lines 645--645 []\T1/pcr/m/n/9 ## call f() with 2 arguments: callNextMethod passes both to th e default method[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 648--648 []\T1/pcr/m/n/9 ## call f() with 1 argument: the default "B0" is not passed b y callNextMethod[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 665--665 []\T1/pcr/m/n/9 ## uses the class of the *argument* to consistently select the "B0" method[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 680--680 []\T1/pcr/m/n/9 ## Although the argument here is numeric, it\TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 s still the "B0" method that\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s called[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1808--1808 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i), sum(1:10, 1+1i))) # the "N umber" method[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1810--1810 []\T1/pcr/m/n/9 stopifnot(identical(cc(1:10, 1+1i, TRUE), c(1:10, 1+1i, TRUE)) ) # the default[] [1203] [1204] Underfull \hbox (badness 10000) in paragraph at lines 1995--2000 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/pcr/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class [1205] [1206] [1207] Underfull \hbox (badness 1478) in paragraph at lines 2227--2232 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/pcr/m/n/10 where = [1208] [1209] Underfull \hbox (badness 10000) in paragraph at lines 2345--2349 []\T1/ptm/m/n/10 To see the ac-tual ta-ble (an [][][]\T1/pcr/m/n/10 environment [][][][]\T1/ptm/m/n/10 ) used for meth-ods dis-patch, call Overfull \hbox (78.78088pt too wide) in paragraph at lines 2379--2379 []\T1/pcr/m/n/10 getMethods(f, where, table = FALSE) # deprecated -> use getMe thodsForDispatch()[] [1210] [1211] [1212] Underfull \hbox (badness 3792) in paragraph at lines 2592--2595 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/pcr/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1213] Underfull \hbox (badness 1194) in paragraph at lines 2623--2627 []\T1/ptm/m/n/10 Object of class []\T1/pcr/m/n/10 "optionalMethod" []\T1/ptm/m/ n/10 (a union of classes []\T1/pcr/m/n/10 "function" []\T1/ptm/m/n/10 and Overfull \hbox (24.78088pt too wide) in paragraph at lines 2679--2679 []\T1/pcr/m/n/10 removeMethods(f, where = topenv(parent.frame()), all = missin g(where))[] [1214] [1215] [1216] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2903--2903 []\T1/pcr/m/n/9 ## get the function "myFun" -- throw an error if 0 or > 1 vers ions visible:[] [1217] [1218] [1219] [1220] [1221] [1222] [1223] Underfull \hbox (badness 10000) in paragraph at lines 3431--3436 []\T1/ptm/m/n/10 Function []\T1/pcr/m/n/10 implicitGeneric() []\T1/ptm/m/n/10 r e-turns the im-plicit generic ver-sion, Underfull \hbox (badness 6268) in paragraph at lines 3431--3436 []\T1/pcr/m/n/10 setGenericImplicit() []\T1/ptm/m/n/10 turns a generic im-plici t, []\T1/pcr/m/n/10 prohibitGeneric() []\T1/ptm/m/n/10 pre-vents [1224] [1225] [1226] Underfull \hbox (badness 10000) in paragraph at lines 3559--3563 []\T1/ptm/m/n/10 For a class (or class def-i-ni-tion, see [][][]\T1/pcr/m/n/10 getClass[][][] []\T1/ptm/m/n/10 and the de-scrip-tion of class [1227] Overfull \hbox (14.78088pt too wide) in paragraph at lines 3668--3677 [] [1228] [1229] Underfull \hbox (badness 10000) in paragraph at lines 3788--3789 [] \T1/pcr/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = Underfull \hbox (badness 10000) in paragraph at lines 3835--3836 []\T1/pcr/m/n/10 setMethod("plot", c("Pos", "missing"), function(x, y, ...) { [1230] Underfull \hbox (badness 10000) in paragraph at lines 3872--3873 []\T1/pcr/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , Underfull \hbox (badness 6157) in paragraph at lines 3935--3939 []\T1/ptm/m/n/10 A call to [][][]\T1/pcr/m/n/10 selectSuperClasses[][][](cl) [] \T1/ptm/m/n/10 re-turns a list of su-per-classes, sim-i-larly to [1231] [1232] [1233] [1234] [1235] [1236] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4346--4346 []\T1/pcr/m/n/10 makeClassRepresentation(name, slots=list(), superClasses=char acter(), Overfull \hbox (0.78088pt too wide) in paragraph at lines 4347--4347 [] \T1/pcr/m/n/10 prototype=NULL, package, validity, ac cess,[] [1237] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4409--4409 []\T1/pcr/m/n/10 method.skeleton(generic, signature, file, external = FALSE, w here) [1238] [1239] Underfull \hbox (badness 2126) in paragraph at lines 4555--4563 []\T1/ptm/m/n/10 For ad-di-tional in-for-ma-tion see doc-u-men-ta-tion for the im-por-tant steps: ([][][]\T1/pcr/m/n/10 setMethod[][][]()[]\T1/ptm/m/n/10 , [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 4792--4801 []\T1/ptm/m/n/10 In prin-ci-ple, a generic func-tion could be any func-tion tha t eval-u-ates a call to [1243] Underfull \vbox (badness 2452) has occurred while \output is active [1244] [1245] [1246] [1247] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5181--5181 []\T1/pcr/m/n/9 f3 <- function(x)UseMethod("f3") # an S3 generic to illustrate inheritance[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5209--5209 []\T1/pcr/m/n/9 stopifnot(identical(abs(y), abs(x))) # (version 2.9.0 or earli er fails here)[] Underfull \vbox (badness 10000) has occurred while \output is active [1248] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5223--5223 []\T1/pcr/m/n/9 ## The S3 method for classA and the closest inherited S3 metho d for classB[] [1249] [1250] [1251] Underfull \hbox (badness 3803) in paragraph at lines 5497--5499 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1252] [1253] [1254] [1255] Underfull \hbox (badness 1087) in paragraph at lines 5731--5736 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1256] [1257] [1258] [1259] [1260] Underfull \hbox (badness 10000) in paragraph at lines 6207--6223 []\T1/ptm/m/n/10 The de-fault method for []\T1/pcr/m/n/10 $initialize() []\T1/p tm/m/n/10 is equiv-a-lent to in-vok-ing the method [1261] [1262] Underfull \hbox (badness 1248) in paragraph at lines 6340--6344 []\T1/ptm/m/n/10 Typically, a spe-cial-ized []\T1/pcr/m/n/10 $initialize() []\T 1/ptm/m/n/10 method car-ries out its own com-pu-ta-tions, Underfull \hbox (badness 1960) in paragraph at lines 6340--6344 \T1/ptm/m/n/10 then in-vokes []\T1/pcr/m/n/10 $initFields() []\T1/ptm/m/n/10 to per-form stan-dard ini-tial-iza-tion, as shown in the [1263] [1264] Underfull \hbox (badness 4647) in paragraph at lines 6495--6497 []\T1/ptm/m/n/10 This method is equiv-a-lent to call-ing the gen-er-a-tor func- tion re-turned by [1265] Underfull \hbox (badness 2875) in paragraph at lines 6644--6653 []\T1/ptm/m/n/10 Reference classes can have va-lid-ity meth-ods in the same sen se as any S4 class (see Underfull \hbox (badness 1436) in paragraph at lines 6644--6653 [][][]\T1/pcr/m/n/10 setValidity[][][][]\T1/ptm/m/n/10 ). Such meth-ods are of- ten a good idea; they will be called by call-ing [1266] [1267] Underfull \vbox (badness 10000) has occurred while \output is active [1268] [1269] [1270] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6976 \aliasA{S4}{S3Part}{S4} Overfull \hbox (66.78088pt too wide) in paragraph at lines 7012--7012 []\T1/pcr/m/n/10 ## Create a new object from the class or use the replacement version of as().[] [1271] [1272] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7205--7205 []\T1/pcr/m/n/9 fit <- lm(sepal ~ Petal.Length + Petal.Width + Species, data = datasets::iris)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7209--7209 []\T1/pcr/m/n/9 myReg <- setClass("myReg", slots = c(title = "character"), con tains = "mlm")[] [1273] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Complex}) has been already used, duplicate ignored \relax l.7234 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Logic}) h as been already used, duplicate ignored \relax l.7236 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) ha s been already used, duplicate ignored \relax l.7237 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.matrixOps }) has been already used, duplicate ignored \relax l.7239 ...sA{matrixOps}{S4groupGeneric}{matrixOps} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7240 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignored \relax l.7241 \aliasA{Summary}{S4groupGeneric}{Summary} [1274] Underfull \hbox (badness 3907) in paragraph at lines 7297--7302 []\T1/ptm/m/n/10 There are also S3 groups []\T1/pcr/m/n/10 Math[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Ops[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Summary[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 Complex []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 matrixOps[ ]\T1/ptm/m/n/10 , see Underfull \hbox (badness 2050) in paragraph at lines 7303--7307 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing Underfull \hbox (badness 6708) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "abs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sign"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "sqrt"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ceiling"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "floor"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trunc" []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cummax"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 2012) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "acosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "asin"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "asinh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "atan"[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 "atanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "exp"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "expm1"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "c os"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3209) in paragraph at lines 7316--7328 []\T1/pcr/m/n/10 "cosh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cospi"[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 "sin"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "sinh"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "sinpi"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tan"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanh"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "tanp i"[]\T1/ptm/m/n/10 , [1275] Overfull \hbox (58.38037pt too wide) in paragraph at lines 7395--7395 []\T1/pcr/m/n/9 selectMethod("Re", signature = "testComplex") # shows Generic: .. "Re" & .."Complex"[] [1276] Underfull \hbox (badness 1694) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 name of the class or (more ef-fi-ciently) the class def-i-ni-t ion ob-ject (see [1277] Underfull \hbox (badness 10000) in paragraph at lines 7508--7511 []\T1/ptm/m/n/10 The typ-i-cal user level func-tion is []\T1/pcr/m/n/10 selectS uperClasses() []\T1/ptm/m/n/10 which calls Overfull \hbox (20.58041pt too wide) in paragraph at lines 7529--7529 []\T1/pcr/m/n/9 selectSuperClasses("C", dropVirtual=TRUE, directOnly=FALSE)# d itto w/o "Root"[] [1278] [1279] [1280] [1281] [1282] [1283] [1284] [1285] [1286] [1287] [1288] [1289] [1290] [1291] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8649--8649 []\T1/pcr/m/n/10 setGroupGeneric(name, def= , group=list(), valueClass=charact er(), [1292] Overfull \hbox (6.78088pt too wide) in paragraph at lines 8725--8725 [] \T1/pcr/m/n/10 by = character(), where = topenv(parent.frame()), class Def =,[] [1293] [1294] [1295] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8988--8988 []\T1/pcr/m/n/9 ## "trackMultiCurve", by making the y, smooth slots into 1-col umn matrices[] [1296] [1297] [1298] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9195--9195 [] \T1/pcr/m/n/9 setLoadAction(function(ns) assign("myCount", 0, envir = ns), "setCount")[] [1299] [1300] [1301] [1302] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9458--9458 []\T1/pcr/m/n/9 ## Using a short form for the signature, which matches like fo rmal arguments[] [1303] [1304] [1305] [1306] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9769--9769 []\T1/pcr/m/n/9 ## Define a new generic function to compute the residual degre es of freedom[] [1307] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9879--9879 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1308] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9890--9890 []\T1/pcr/m/n/9 ## Not run: [,1] [,2] [,3] [,4] [,5] [,6] [,7] [,8] [,9] [,1 0] [,11] [,12][] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] Underfull \hbox (badness 10000) in paragraph at lines 10615--10617 []\T1/ptm/m/n/10 Object of the orig-i-nal class; e.g., []\T1/pcr/m/n/10 "functi on" []\T1/ptm/m/n/10 for class Underfull \hbox (badness 1852) in paragraph at lines 10623--10627 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., Underfull \hbox (badness 1681) in paragraph at lines 10623--10627 []\T1/pcr/m/n/10 "functionWithTrace" []\T1/ptm/m/n/10 ex-tends []\T1/pcr/m/n/10 "function"[]\T1/ptm/m/n/10 . Each of the spe-cific classes ex-tends [1318] [1319] [1320] [1321]) (./parallel-pkg.tex [1322] Chapter 8. Underfull \hbox (badness 2418) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/p cr/m/n/10 "L\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1323] Underfull \hbox (badness 4242) in paragraph at lines 96--98 []\T1/ptm/m/n/10 a vec-tor for []\T1/pcr/m/n/10 clusterApply []\T1/ptm/m/n/10 a nd []\T1/pcr/m/n/10 clusterApplyLB[]\T1/ptm/m/n/10 , a ma-trix for [1324] [1325] Underfull \hbox (badness 1024) in paragraph at lines 213--216 []\T1/ptm/m/n/10 Two ex-cep-tions: []\T1/pcr/m/n/10 parLapply []\T1/ptm/m/n/10 has ar-gu-ment []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 not []\T1/pcr/m/n/10 x []\T1 /ptm/m/n/10 for con-sis-tency with [][][]\T1/pcr/m/n/10 lapply[][][][]\T1/ptm/m /n/10 , and [1326] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1327] [1328] Underfull \hbox (badness 10000) in paragraph at lines 453--455 []\T1/ptm/m/n/10 Character vec-tor of ad-di-tional ar-gu-ments for []\T1/pcr/m/ n/10 Rscript []\T1/ptm/m/n/10 such as [1329] [1330] [1331] [1332] [1333] Underfull \hbox (badness 1917) in paragraph at lines 802--811 []\T1/pcr/m/n/10 mcfork []\T1/ptm/m/n/10 re-turns an ob-ject of the class []\T1 /pcr/m/n/10 "childProcess" []\T1/ptm/m/n/10 to the mas-ter and of class Underfull \hbox (badness 1178) in paragraph at lines 802--811 []\T1/pcr/m/n/10 "masterProcess" []\T1/ptm/m/n/10 to the child: both the classe s in-herit from class []\T1/pcr/m/n/10 "process"[]\T1/ptm/m/n/10 . If [1334] [1335] Overfull \hbox (60.78088pt too wide) in paragraph at lines 895--895 [] \T1/pcr/m/n/10 mc.cleanup = TRUE, mc.allow.recursive = TRUE, affini ty.list = NULL)[] [1336] [1337] [1338] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1086--1086 []\T1/pcr/m/n/9 mclapply(list(A, A, A), first, mc.preschedule = FALSE, affinit y.list = affL)[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 1090--1090 []\T1/pcr/m/n/9 # To optimize the overall execution time elements of X are sch eduled to suitable CPUs[] [1339] Underfull \hbox (badness 5388) in paragraph at lines 1205--1210 []\T1/pcr/m/n/10 mcparallel []\T1/ptm/m/n/10 re-turns an ob-ject of the class [ ]\T1/pcr/m/n/10 "parallelJob" []\T1/ptm/m/n/10 which in-her-its from [1340] Underfull \hbox (badness 10000) in paragraph at lines 1229--1237 []\T1/ptm/m/n/10 The be-haviour with []\T1/pcr/m/n/10 mc.set.seed = TRUE []\T1/ ptm/m/n/10 is dif-fer-ent only if Overfull \hbox (9.78043pt too wide) in paragraph at lines 1265--1265 []\T1/pcr/m/n/9 mccollect(p, wait = FALSE, 10) # will retrieve the result (sin ce it\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s fast)[] [1341] [1342] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1380--1380 [] \T1/pcr/m/n/9 as.integer(runif(N, 1, 12)), as.integer(runif (N, 1, 28)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1394--1394 []\T1/pcr/m/n/9 system.time(c <- unlist(mclapply(dates, as.POSIXct, format = "%Y-%m-%d")))[] [1343] Underfull \hbox (badness 1577) in paragraph at lines 1423--1426 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/pcr/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the Underfull \hbox (badness 3375) in paragraph at lines 1470--1472 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 nextRNGStream []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 nextRNGSubStream[]\T1/ptm/m/n/10 , a value which can be as-signed to [1344] [1345]) (./splines-pkg.tex [1346] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/pcr/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] Overfull \hbox (4.38043pt too wide) in paragraph at lines 508--508 []\T1/pcr/m/n/9 ispl <- polySpline(interpSpline( weight ~ height, women, bSpl ine = TRUE))[] [1355] Underfull \hbox (badness 1043) in paragraph at lines 609--611 []\T1/ptm/m/n/10 An in-te-ger be-tween 0 and []\T1/pcr/m/n/10 splineOrder(objec t) - 1 []\T1/ptm/m/n/10 spec-i-fy-ing the [1356] [1357] Overfull \hbox (25.98041pt too wide) in paragraph at lines 723--723 []\T1/pcr/m/n/9 Matrix::drop0(zapsmall(6*splineDesign(knots = 1:40, x = 4:37, sparse = TRUE)))[] [1358] [1359] [1360]) (./stats-pkg.tex Chapter 10. [1361] Underfull \hbox (badness 1077) in paragraph at lines 71--74 []\T1/pcr/m/n/10 .MFclass() []\T1/ptm/m/n/10 re-turns a char-ac-ter string, one of []\T1/pcr/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ordered"[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 "factor"[]\T1/ptm/m/n/10 , Overfull \hbox (69.18036pt too wide) in paragraph at lines 91--91 []\T1/pcr/m/n/9 (xl <- .getXlevels(terms(mf), mf)) # a list with one entry " $ Species" with 3 levels:[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 94--94 [] \T1/pcr/m/n/9 identical(.getXlevels(terms(mc), mc), xl[0]) # a empty named list, as no factors[] [1362] [1363] [1364] [1365] [1366] Overfull \hbox (20.58041pt too wide) in paragraph at lines 445--445 []\T1/pcr/m/n/9 add1(glm.D93, scope = ~outcome*treatment, test = "Rao") ## Pea rson Chi-square[] [1367] Overfull \hbox (6.78088pt too wide) in paragraph at lines 468--468 []\T1/pcr/m/n/10 addmargins(A, margin = seq_along(dim(A)), FUN = sum, quiet = FALSE) [1368] [1369] [1370] [1371] [1372] [1373] Underfull \hbox (badness 1024) in paragraph at lines 903--905 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/pcr/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382] [1383] [1384] [1385] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1651--1651 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1654--1654 [] \T1/pcr/m/n/10 yleft, yright, rule = 1, f = 0, ties = mean, na.rm = TRUE)[] [1386] [1387] Overfull \hbox (112.38031pt too wide) in paragraph at lines 1798--1798 [] \T1/pcr/m/n/9 if(is.null(xout)) { rx <- range(x, na.rm=TRUE); xout <- seq( rx[1], rx[2], length.out = 25) }[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1804--1804 [] \T1/pcr/m/n/9 approx(x, y, xout=xout, method=M, rule=R, na. rm=na., ...)$y),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1809--1809 [] \T1/pcr/m/n/9 ftable(aperm(ry, 4:1)) # --> (4 * 2 * 2) x length(xout) = 16 x 9 matrix[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 1819--1819 []\T1/pcr/m/n/9 (amy <- approx(x, y, xout = x)$y) # warning, can be avoided by specifying \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ties=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 :[ ] Underfull \vbox (badness 10000) has occurred while \output is active [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400] [1401] [1402] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2859--2859 []\T1/pcr/m/n/10 ARMAacf(ar = numeric(), ma = numeric(), lag.max = r, pacf = F ALSE) [1403] [1404] [1405] [1406] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3118--3118 []\T1/pcr/m/n/9 lines(ave(breaks, wool, tension, FUN = median), type = "s", co l = "green")[] [1407] [1408] [1409] Underfull \hbox (badness 10000) in paragraph at lines 3333--3335 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Bartlett test of homo geneity of [1410] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3381--3381 []\T1/pcr/m/n/10 pbeta(q, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3382--3382 []\T1/pcr/m/n/10 qbeta(p, shape1, shape2, ncp = 0, lower.tail = TRUE, log.p = FALSE)[] [1411] [1412] [1413] [1414] [1415] Package amsmath Warning: Foreign command \atopwithdelims; (amsmath) \frac or \genfrac should be used instead (amsmath) on input line 3741. [1416] Underfull \hbox (badness 4913) in paragraph at lines 3781--3784 []\T1/pcr/m/n/10 rbinom []\T1/ptm/m/n/10 (for []\T1/pcr/m/n/10 size < .Machine$ integer.max[]\T1/ptm/m/n/10 ) is based on Ka-chitvichyanukul and Overfull \hbox (9.78043pt too wide) in paragraph at lines 3812--3812 []\T1/pcr/m/n/9 plot (k, dbinom(k, n, pi/10, log = TRUE), type = "l", ylab = " log density",[] [1417] [1418] [1419] [1420] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4090--4090 []\T1/pcr/m/n/10 Box.test(x, lag = 1, type = c("Box-Pierce", "Ljung-Box"), fit df = 0) [1421] [1422] [1423] [1424] [1425] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4383--4383 []\T1/pcr/m/n/10 pcauchy(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4384--4384 []\T1/pcr/m/n/10 qcauchy(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1426] [1427] [1428] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4629--4629 []\T1/pcr/m/n/9 chisq.test(x, p = p) # maybe doubtful , but is ok![] [1429] [1430] [1431] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4819--4819 [] \T1/pcr/m/n/9 plot(pp, sort(pchisq(rr <- rchisq(n, df = df, ncp = L), df = df, ncp = L)),[] [1432] Underfull \hbox (badness 3989) in paragraph at lines 4916--4923 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1433] [1434] [1435] [1436] Overfull \hbox (66.78088pt too wide) in paragraph at lines 5151--5151 []\T1/pcr/m/n/10 confint(object, parm, level = 0.95, trace = FALSE, test=c("LR T", "Rao"), ...)[] [1437] [1438] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5329--5329 []\T1/pcr/m/n/9 constrOptim(c(-1.2,0.9), fr, grr, ui = rbind(c(-1,0), c(0,-1)) , ci = c(-1,-1))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5331--5331 []\T1/pcr/m/n/9 constrOptim(c(.5,0), fr, grr, ui = rbind(c(-1,0), c(1,-1)), ci = c(-0.9,0.1))[] [1439] [1440] [1441] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5553--5553 []\T1/pcr/m/n/9 ## using sparse contrasts: % useful, once model.matrix() works with these :[] [1442] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5571--5571 []\T1/pcr/m/n/10 convolve(x, y, conj = TRUE, type = c("circular", "open", "fil ter")) [1443] [1444] [1445] Underfull \hbox (badness 1436) in paragraph at lines 5784--5789 []\T1/ptm/m/n/10 an op-tional char-ac-ter string giv-ing a method for com-put-i ng co-vari-ances Underfull \hbox (badness 1377) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 in the pres-ence of miss-ing val-ues. This must be (an ab-bre-vi -a-tion of) Underfull \hbox (badness 1448) in paragraph at lines 5784--5789 \T1/ptm/m/n/10 one of the strings []\T1/pcr/m/n/10 "everything"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "all.obs"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "complete.obs" []\T1/ptm/m/n/10 , [1446] [1447] Underfull \vbox (badness 10000) has occurred while \output is active [1448] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5986--5986 [] \T1/pcr/m/n/10 exact = NULL, conf.level = 0.95, continuity = FALSE, ...)[] [1449] [1450] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6155--6155 []\T1/pcr/m/n/10 cov.wt(x, wt = rep(1/nrow(x), nrow(x)), cor = FALSE, center = TRUE, [1451] [1452] [1453] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6340--6340 []\T1/pcr/m/n/10 decompose(x, type = c("additive", "multiplicative"), filter = NULL) [1454] [1455] Overfull \hbox (84.78088pt too wide) in paragraph at lines 6452--6452 []\T1/pcr/m/n/10 reformulate(termlabels, response = NULL, intercept = TRUE, en v = parent.frame())[] Underfull \hbox (badness 10000) in paragraph at lines 6471--6476 []\T1/ptm/m/n/10 a nu-meric vec-tor in-dex-ing []\T1/pcr/m/n/10 labels(termobj) []\T1/ptm/m/n/10 (that is, the [1456] [1457] [1458] [1459] Underfull \hbox (badness 5954) in paragraph at lines 6721--6723 []\T1/ptm/m/n/10 logical in-di-cat-ing if a box around the plot should be drawn , see [1460] Underfull \hbox (badness 2503) in paragraph at lines 6802--6805 []\T1/ptm/m/n/10 Objects of class []\T1/pcr/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/pcr/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 5563) in paragraph at lines 6806--6808 []\T1/pcr/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also Underfull \hbox (badness 1655) in paragraph at lines 6809--6814 \T1/ptm/m/n/10 has []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y [ ]\T1/ptm/m/n/10 (and op-tional fur-ther ar-gu-ments) as branches. Note that be- fore \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.1.2, [1461] Underfull \hbox (badness 7238) in paragraph at lines 6845--6848 [][][]\T1/pcr/m/n/10 dendrapply[][][] []\T1/ptm/m/n/10 for ap-ply-ing a func-ti on to \T1/ptm/m/it/10 each \T1/ptm/m/n/10 node. [][][]\T1/pcr/m/n/10 order.dend rogram[][][] []\T1/ptm/m/n/10 and Overfull \hbox (4.38043pt too wide) in paragraph at lines 6857--6857 []\T1/pcr/m/n/9 str(dend1, max.level = 2, last.str = "\TS1/pcr/m/n/9 '\T1/pcr /m/n/9 ") # only the first two sub-levels[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6880--6880 []\T1/pcr/m/n/9 plot(dend2$lower[[3]], nodePar = list(col = 4), horiz = TRUE, type = "tr")[] [1462] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6895--6895 []\T1/pcr/m/n/9 ## merge() all parts back (using default \TS1/pcr/m/n/9 '\T1/p cr/m/n/9 height\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 instead of original one):[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6910--6910 []\T1/pcr/m/n/9 plot(d3, nodePar= nP, edgePar = list(col = "gray", lwd = 2), h oriz = TRUE)[] [1463] [1464] [1465] [1466] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7197--7197 []\T1/pcr/m/n/9 abline(h = 1/1022, v = range(x), lty=2); axis(2, at=1/1022, "1 /(2n-2)", las=1)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7202--7202 [] \T1/pcr/m/n/9 function(k) density(kernel = k, give.Rker n = TRUE))))[] Underfull \vbox (badness 10000) has occurred while \output is active [1467] [1468] [1469] Underfull \vbox (badness 10000) has occurred while \output is active [1470] [1471] [1472] [1473] Underfull \hbox (badness 10000) in paragraph at lines 7602--7606 []\T1/pcr/m/n/10 "maximum"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "manhattan"[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 "canberra"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "bi nary" []\T1/ptm/m/n/10 or [1474] Underfull \hbox (badness 6493) in paragraph at lines 7704--7707 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from []\T1/ pcr/m/n/10 dist()[]\T1/ptm/m/n/10 , the [1475] [1476] [1477] [1478] [1479] [1480] [1481] [1482] Underfull \hbox (badness 10000) in paragraph at lines 8263--8268 []\T1/ptm/m/n/10 Each row of the re-sult-ing ma-trix con-sists of se-quences [] \T1/pcr/m/n/10 x[t][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 x[t-1][]\T1/ptm/m/n/10 , ..., [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 1107) in paragraph at lines 8597--8600 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 na.action[][][] []\T1/ptm/m/n/10 to b e used if []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is used as a for-mula, in which c ase [1489] [1490] Underfull \hbox (badness 1097) in paragraph at lines 8746--8750 []\T1/ptm/m/n/10 Jreskog KG (1963). \T1/ptm/m/it/10 Sta-tis-ti-cal Es-ti-ma-ti on in Fac-tor Anal-y-sis\T1/ptm/m/n/10 . Almqvist and Wick-sell. Underfull \hbox (badness 10000) in paragraph at lines 8746--8750 [][]$\T1/pcr/m/n/10 https : / / openlibrary . org / books / OL5972263M / Statis tical _ estimation _ [1491] [1492] Underfull \hbox (badness 1325) in paragraph at lines 8898--8910 \T1/ptm/m/n/10 (cor-re-spond-ing to lo-gis-tic, nor-mal and Cauchy CDFs re-spec -tively) []\T1/pcr/m/n/10 log[]\T1/ptm/m/n/10 , [1493] [1494] [1495] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9101--9101 []\T1/pcr/m/n/9 glm.qD93 <- glm(counts ~ outcome + treatment, d.AD, family = q uasipoisson())[] Underfull \vbox (badness 10000) has occurred while \output is active [1496] Overfull \hbox (31.3804pt too wide) in paragraph at lines 9146--9146 []\T1/pcr/m/n/9 ## Not run: glm(y ~ x, family = quasi(variance = "mu^3", link = "log")) # fails[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9149--9149 []\T1/pcr/m/n/9 glm(y ~ x, family = quasi(variance = "mu(1-mu)", link = "logit "), start = c(0,1))[] [1497] [1498] [1499] Underfull \hbox (badness 1810) in paragraph at lines 9382--9388 []\T1/ptm/m/n/10 Singleton RC (1979). ``Mixed Radix Fast Fourier Trans-forms.'' In IEEE Dig-i-tal Sig- Underfull \hbox (badness 2460) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 nal Pro-cess-ing Com-mit-tee (ed.), \T1/ptm/m/it/10 Pro-grams fo r Dig-i-tal Sig-nal Pro-cess-ing\T1/ptm/m/n/10 , chap-ter 1.4.1. Underfull \hbox (badness 1742) in paragraph at lines 9382--9388 \T1/ptm/m/n/10 IEEE Press, New York. ISBN 0-87942-128-2. [][]$\T1/pcr/m/n/10 ht tps : / / archive . org / details / [1500] [1501] [1502] [1503] [1504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 9733--9733 [] \T1/pcr/m/n/9 dimnames = list(income = c("< 15k", "15-25k", "25-4 0k", "> 40k"),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 9734--9734 [] \T1/pcr/m/n/9 satisfaction = c("VeryD", "LittleD", "Mod erateS", "VeryS")))[] [1505] [1506] [1507] Underfull \hbox (badness 7291) in paragraph at lines 9915--9917 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Fligner-Killeen test of homogeneity of [1508] [1509] [1510] [1511] Overfull \hbox (54.78088pt too wide) in paragraph at lines 10226--10226 []\T1/pcr/m/n/10 free1way(y, groups, blocks = NULL, event = NULL, weights = NU LL, nbins = 0,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10235--10235 []\T1/pcr/m/n/10 summary(object, test, alternative = c("two.sided", "less", "g reater"),[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 10238--10238 []\T1/pcr/m/n/10 summary(object, test = "Wald", alternative = c("two.sided", " less", "greater"),[] [1512] Underfull \hbox (badness 1253) in paragraph at lines 10318--10323 []\T1/ptm/m/n/10 a char-ac-ter vec-tor defin-ing the global test pro-ce-dure fo r all pa-ram-e-ters: Underfull \hbox (badness 1337) in paragraph at lines 10323--10326 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1513] [1514] [1515] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10497--10497 []\T1/pcr/m/n/9 x$performance <- c(rep(s[c(1, 1)], nvoters[1]), rep(s[c(2, 1)] , nvoters[2]),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10498--10498 [] \T1/pcr/m/n/9 rep(s[c(1, 2)], nvoters[3]), rep(s[c(2, 2)] , nvoters[4]))[] Underfull \vbox (badness 10000) has occurred while \output is active [1516] [1517] [1518] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10687--10687 [] \T1/pcr/m/n/10 row.vars = NULL, col.vars = NULL, perm = c(rev(row.var s), rev(col.vars)))[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10690--10690 [] \T1/pcr/m/n/10 perm = c(rev(seq_len(nrv)), rev(seq_len(ncv) + nrv)) , ...)[] [1519] Underfull \hbox (badness 6944) in paragraph at lines 10767--10773 [][][]\T1/pcr/m/n/10 ftable.formula[][][] []\T1/ptm/m/n/10 for the for-mula in- ter-face (which al-lows a []\T1/pcr/m/n/10 data = . []\T1/ptm/m/n/10 ar-gu-ment ); [1520] [1521] [1522] Underfull \hbox (badness 3758) in paragraph at lines 10983--10986 []\T1/ptm/m/n/10 See also [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Incomplete _ gamma _ function$[][]\T1/ptm/m/n/10 , or [1523] [1524] [1525] [1526] Overfull \hbox (6.78088pt too wide) in paragraph at lines 11241--11241 [] \T1/pcr/m/n/10 x = FALSE, y = TRUE, singular.ok = TRUE, contrasts = NULL , ...)[] Underfull \hbox (badness 4518) in paragraph at lines 11267--11272 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1527] Underfull \hbox (badness 4132) in paragraph at lines 11308--11312 []\T1/ptm/m/n/10 the method to be used in fit-ting the model. The de-fault meth od Underfull \hbox (badness 1112) in paragraph at lines 11362--11368 []\T1/ptm/m/n/10 A spec-i-fi-ca-tion of the form []\T1/pcr/m/n/10 first:second []\T1/ptm/m/n/10 in-di-cates the set of terms ob-tained by tak- [1528] Underfull \hbox (badness 10000) in paragraph at lines 11418--11421 []\T1/ptm/m/n/10 The generic ac-ces-sor func-tions [][][]\T1/pcr/m/n/10 coeffic ients[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 effects[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 fitted.values []\T1/ptm/m/n/10 and [1529] [1530] [1531] Underfull \hbox (badness 2142) in paragraph at lines 11638--11641 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ [1532] [1533] Underfull \hbox (badness 1708) in paragraph at lines 11719--11723 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: Underfull \hbox (badness 10000) in paragraph at lines 11763--11769 [][][]\T1/pcr/m/n/10 glm[][][] []\T1/ptm/m/n/10 for com-put-ing []\T1/pcr/m/n/1 0 glm.obj[]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 anova.glm[][][][]\T1/ptm/m/n/1 0 ; the cor-re-spond-ing \T1/ptm/m/it/10 generic \T1/ptm/m/n/10 func-tions, [1534] Underfull \hbox (badness 1418) in paragraph at lines 11801--11806 []\T1/pcr/m/n/10 "average" []\T1/ptm/m/n/10 (= UP-GMA), []\T1/pcr/m/n/10 "mcqui tty" []\T1/ptm/m/n/10 (= WPGMA), []\T1/pcr/m/n/10 "median" []\T1/ptm/m/n/10 (= [1535] [1536] Underfull \hbox (badness 2635) in paragraph at lines 11937--11940 \T1/ptm/m/n/10 There are [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 plot[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 identify []\ T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 identify.hclust[][][][]\T1/ptm/m/n/10 ) meth-ods and the [1537] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12065--12065 [] \T1/pcr/m/n/9 plot(hcity$D2, hang=-1) # [2,2] as above, [1,2], just y-axis numbers differ[] Overfull \hbox (30.0281pt too wide) in paragraph at lines 12067--12067 []\T1/pcr/m/n/9 mrg <- sapply(hcity, \TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 [[\TS1/cmt t/m/n/9 `\T1/pcr/m/n/9 , "merge") # defining cluster tree (apart from height)[] [1538] [1539] Underfull \hbox (badness 1694) in paragraph at lines 12152--12155 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1540] Overfull \hbox (25.98041pt too wide) in paragraph at lines 12265--12265 []\T1/pcr/m/n/9 heatmap(Ca, Rowv = FALSE, symm = TRUE, RowSideColors = cc, Col SideColors = cc,[] [1541] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12298--12298 [] \T1/pcr/m/n/10 optim.start = c(alpha = 0.3, beta = 0.1, gamma = 0.1),[] Underfull \hbox (badness 10000) in paragraph at lines 12311--12315 []\T1/ptm/m/n/10 Character string to se-lect an []\T1/pcr/m/n/10 "additive" []\ T1/ptm/m/n/10 (the de-fault) or [1542] [1543] [1544] [1545] [1546] [1547] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12643--12643 []\T1/pcr/m/n/9 identify(hci, function(k) barplot(table(iris[k,5]), col = 2:4) , DEV.FUN = nD)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.hat}) has been already used, duplicate ignored \relax l.12661 \aliasA{hat}{influence.measures}{hat} [1548] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12733--12733 []\T1/pcr/m/n/10 cooks.distance(model, infl = lm.influence(model, do.coef = FA LSE),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12745--12745 []\T1/pcr/m/n/10 hatvalues(model, infl = lm.influence(model, do.coef = FALSE), ...)[] [1549] Underfull \hbox (badness 1062) in paragraph at lines 12800--12805 []\T1/ptm/m/n/10 The op-tional []\T1/pcr/m/n/10 infl[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 res []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 sd []\T1/ptm/m/n/10 ar-gu-me nts are there to en-cour-age the use of these di- Underfull \hbox (badness 1052) in paragraph at lines 12817--12819 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1550] [1551] [1552] [1553] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13069--13069 []\T1/pcr/m/n/9 integrate(dnorm, 0, 20000) ## "fails" on many systems -- "wron gly" giving \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 0\TS1/pcr/m/n/9 '[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13088--13088 [] \T1/pcr/m/n/10 type = c("l", "p", "b", "o", "c"), legend = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13089--13089 [] \T1/pcr/m/n/10 trace.label = deparse1(substitute(trace.fact or)),[] [1554] [1555] [1556] [1557] [1558] Underfull \hbox (badness 10000) in paragraph at lines 13425--13427 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/pcr/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 SSinit = [1559] Underfull \hbox (badness 4739) in paragraph at lines 13448--13450 []\T1/ptm/m/n/10 the es-ti-mate at time $\OML/cmm/m/it/10 t \OMS/cmsy/m/n/10 ^^ @ \OT1/cmr/m/n/10 1$ \T1/ptm/m/n/10 of the state un-cer-tainty ma-trix $\OML/cm m/m/it/10 Q$ \T1/ptm/m/n/10 (not up-dated by [1560] [1561] [1562] [1563] Underfull \hbox (badness 3417) in paragraph at lines 13763--13765 []\T1/ptm/m/n/10 an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of class []\T1/pcr/ m/n/10 "kmeans"[]\T1/ptm/m/n/10 , typ-i-cally the re-sult []\T1/pcr/m/n/10 ob [ ]\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 ob <- Underfull \hbox (badness 2894) in paragraph at lines 13769--13773 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method Underfull \hbox (badness 1038) in paragraph at lines 13769--13773 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 "Hartigan-Wong"[]\T1/ptm/m/n/10 ): if pos-i-ti ve (or true), trac-ing in-for-ma-tion on the [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571] [1572] [1573] [1574] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14450--14450 []\T1/pcr/m/n/9 lag.plot(sqrt(sunspots), set.lags = c(1:4, 9:12), pch = ".", c ol = "gold")[] Underfull \hbox (badness 1281) in paragraph at lines 14512--14516 []\T1/ptm/m/n/10 Johnstone IM, Velle-man PF (1985). ``The Re-sis-tant Line and Re-lated Re-gres-sion Meth- [1575] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14553--14553 []\T1/pcr/m/n/9 dimnames(cAS) <- list(paste("it =", format(1:10)), c("intercep t", "slope"))[] [1576] Underfull \hbox (badness 4518) in paragraph at lines 14601--14606 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1577] [1578] [1579] Underfull \hbox (badness 10000) in paragraph at lines 14805--14809 []\T1/ptm/m/n/10 More []\T1/pcr/m/n/10 lm() []\T1/ptm/m/n/10 ex-am-ples are ava il-able e.g., in [][][]\T1/pcr/m/n/10 anscombe[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 attitude[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 freeny[][][] []\T1/ptm/m/n/10 , [1580] [1581] [1582] Underfull \hbox (badness 1874) in paragraph at lines 15058--15061 []\T1/ptm/m/n/10 These func-tions call [][][]\T1/pcr/m/n/10 weighted.residuals[ ][][]() []\T1/ptm/m/n/10 so it is as-sumed that the meth-ods for [1583] [1584] Underfull \hbox (badness 1163) in paragraph at lines 15175--15183 \T1/ptm/m/n/10 els, [][][]\T1/pcr/m/n/10 influence[][][] []\T1/ptm/m/n/10 (etc on that page) for re-gres-sion di-ag-nos-tics, [][][]\T1/pcr/m/n/10 weighted.re siduals[][][][]\T1/ptm/m/n/10 , [1585] [1586] Underfull \hbox (badness 4518) in paragraph at lines 15297--15302 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1587] [1588] [1589] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15488--15488 []\T1/pcr/m/n/10 plogis(q, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 15489--15489 []\T1/pcr/m/n/10 qlogis(p, location = 0, scale = 1, lower.tail = TRUE, log.p = FALSE)[] [1590] [1591] [1592] [1593] [1594] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15839--15839 []\T1/pcr/m/n/10 plnorm(q, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15840--15840 []\T1/pcr/m/n/10 qlnorm(p, meanlog = 0, sdlog = 1, lower.tail = TRUE, log.p = FALSE)[] [1595] Overfull \hbox (18.78088pt too wide) in paragraph at lines 15937--15937 []\T1/pcr/m/n/10 lowess(x, y = NULL, f = 2/3, iter = 3, delta = 0.01 * diff(ra nge(x))) [1596] [1597] [1598] [1599] [1600] [1601] [1602] Underfull \hbox (badness 2726) in paragraph at lines 16348--16351 []\T1/ptm/m/n/10 character; one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , [ ]\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cauchit"[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 "cloglog"[]\T1/ptm/m/n/10 , [1603] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16442--16442 []\T1/pcr/m/n/9 stopifnot(all.equal(pfm, pf2)) ## was off (rel.diff. 0.0766) i n R <= 3.5.0[] [1604] [1605] [1606] [1607] [1608] Overfull \hbox (42.78088pt too wide) in paragraph at lines 16704--16704 [] \T1/pcr/m/n/10 T = Thin.row(Proj(M) - Proj(X)), M = diag(nrow = p), X = ~0,[] [1609] [1610] [1611] [1612] [1613] Overfull \hbox (31.3804pt too wide) in paragraph at lines 17083--17083 []\T1/pcr/m/n/9 a <- model.frame(cbind(ncases,ncontrols) ~ agegp + tobgp + alc gp, data = esoph) [1614] [1615] Underfull \hbox (badness 1490) in paragraph at lines 17236--17241 \T1/ptm/m/n/10 those spec-i-fied in []\T1/pcr/m/n/10 ... []\T1/ptm/m/n/10 which are re-cy-cled to the num-ber of data frame rows. Un-like [1616] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17272--17272 []\T1/pcr/m/n/9 model.frame(dist ~ speed, data = cars, subset = speed < 10, z = log(dist))[] Underfull \hbox (badness 1648) in paragraph at lines 17308--17310 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, [1617] Overfull \hbox (36.7804pt too wide) in paragraph at lines 17393--17393 []\T1/pcr/m/n/9 model.matrix(~ a + b, dd, contrasts.arg = list(a = "contr.sum" , b = contr.poly))[] [1618] Overfull \hbox (9.78043pt too wide) in paragraph at lines 17394--17394 []\T1/pcr/m/n/9 m.orth <- model.matrix(~a+b, dd, contrasts.arg = list(a = "con tr.helmert"))[] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] Overfull \hbox (25.98041pt too wide) in paragraph at lines 18192--18192 []\T1/pcr/m/n/9 persp(x, size, dnb <- outer(x, size, function(x,s) dnbinom(x, s, prob = 0.4)),[] [1630] [1631] [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Overfull \hbox (58.38037pt too wide) in paragraph at lines 18825--18825 [] \T1/pcr/m/n/9 main = "Residuals vs Hatvalues (nonlinear!)"); abline(h = 0, lty=2, col="gray")[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 18830--18830 []\T1/pcr/m/n/9 axis(3, at=2*p.n, labels="2 p/n", line = -1/2, padj = 1/2, col =4, col.axis=4)[] [1640] Underfull \vbox (badness 10000) has occurred while \output is active [1641] Overfull \hbox (42.18039pt too wide) in paragraph at lines 18921--18921 []\T1/pcr/m/n/9 ## adjusting the convergence test by adding \TS1/pcr/m/n/9 '\T 1/pcr/m/n/9 scaleOffset\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 to its denominator RSS:[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 18940--18940 []\T1/pcr/m/n/9 ## Here, requiring close convergence, must use more accurate n umerical differentiation,[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 18941--18941 []\T1/pcr/m/n/9 ## as this typically gives Error: "step factor .. reduced belo w \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 minFactor\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 .."[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 18945--18945 []\T1/pcr/m/n/9 ## central differencing works here typically (PR#18165: not co nverging on *some*):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18946--18946 []\T1/pcr/m/n/9 ctr2 <- nls.control(nDcentral=TRUE, tol = 8e-8, # <- even smal ler than above[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 18949--18949 [] \T1/pcr/m/n/9 (grepl("^aarch64.*linux", R.version$platform) && grepl ("^NixOS", osVersion)[] Underfull \vbox (badness 10000) has occurred while \output is active [1642] Overfull \hbox (15.18042pt too wide) in paragraph at lines 18981--18981 [] \T1/pcr/m/n/9 start = list(a = rep(b[2], 21), b = rep(b[3], 21 ), th = b[1]))[] [1643] [1644] Overfull \hbox (9.78043pt too wide) in paragraph at lines 19159--19159 []\T1/pcr/m/n/9 DN.srt <- sortedXyData(expression(log(conc)), expression(densi ty), DNase.2)[] [1645] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19206--19206 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1646] Overfull \hbox (20.58041pt too wide) in paragraph at lines 19253--19253 []\T1/pcr/m/n/9 DN.srt <- sortedXyData( expression(log(conc)), expression(dens ity), DNase.2 )[] [1647] [1648] [1649] Overfull \hbox (102.78088pt too wide) in paragraph at lines 19476--19476 [] \T1/pcr/m/n/10 eps = .Machine$double.eps ^ (1/if(central) 3 els e 2), central = FALSE)[] [1650] [1651] [1652] [1653] Underfull \hbox (badness 10000) in paragraph at lines 19761--19767 []\T1/ptm/m/n/10 Method []\T1/pcr/m/n/10 "Brent" []\T1/ptm/m/n/10 is for one-di mensional prob-lems only, us-ing [][][]\T1/pcr/m/n/10 optimize[][][](, [1654] Underfull \hbox (badness 1248) in paragraph at lines 19797--19800 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 1661) in paragraph at lines 19810--19814 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 1478) in paragraph at lines 19818--19822 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 control$trace []\T1/ptm/m/n/10 is pos-i-tive . De-faults to ev-ery 10 it-er-a-tions for []\T1/pcr/m/n/10 "BFGS" []\T1/ptm/m/ n/10 and [1655] Underfull \hbox (badness 2042) in paragraph at lines 19876--19878 []\T1/ptm/m/n/10 indicates an er-ror from the []\T1/pcr/m/n/10 "L-BFGS-B" []\T1 /ptm/m/n/10 method; see com-po-nent [1656] Overfull \hbox (15.18042pt too wide) in paragraph at lines 19982--19982 [] \T1/pcr/m/n/9 lower = rep(2, 25), upper = rep(4, 25)) # par[24] is *no t* at boundary[] [1657] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20025--20025 [] \T1/pcr/m/n/9 main = "initial solution of traveling salesman problem", axes = FALSE)[] Overfull \hbox (123.1803pt too wide) in paragraph at lines 20043--20043 []\T1/pcr/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (96.18033pt too wide) in paragraph at lines 20046--20046 []\T1/pcr/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1658] Overfull \hbox (36.78088pt too wide) in paragraph at lines 20066--20066 []\T1/pcr/m/n/10 optimize(f, interval, ..., lower = min(interval), upper = max (interval), Overfull \hbox (36.78088pt too wide) in paragraph at lines 20069--20069 []\T1/pcr/m/n/10 optimise(f, interval, ..., lower = min(interval), upper = max (interval),[] Underfull \hbox (badness 2564) in paragraph at lines 20104--20115 []\T1/ptm/m/n/10 The func-tion []\T1/pcr/m/n/10 f []\T1/ptm/m/n/10 is never eva l-u-ated at two points closer to-gether than $\OML/cmm/m/it/10 ^^O$$\OMS/cmsy/m /n/10 j\OML/cmm/m/it/10 x[]\OMS/cmsy/m/n/10 j \OT1/cmr/m/n/10 + (\OML/cmm/m/it/ 10 tol=\OT1/cmr/m/n/10 3)$\T1/ptm/m/n/10 , Underfull \hbox (badness 1082) in paragraph at lines 20104--20115 \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 ^^O$ \T1/ptm/m/n/10 is ap-prox-i-mately []\T1/pcr/m/n/10 sqrt([][].Machine[][][]$double.eps) []\T1/ptm/m/n/10 and $\OML /cmm/m/it/10 x[]$ \T1/ptm/m/n/10 is the fi-nal ab-scissa [1659] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20168--20168 []\T1/pcr/m/n/9 f <- function(x) ifelse(x > -1, ifelse(x < 4, exp(-1/abs(x - 1)), 10), 10)[] [1660] [1661] [1662] [1663] Overfull \hbox (9.78043pt too wide) in paragraph at lines 20419--20419 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6,[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 20422--20422 [] \T1/pcr/m/n/9 legend("bottomright", p.adjust.M, col = 1:7, lty = 1:6, bty = "n", inset = 0.05)[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20428--20428 []\T1/pcr/m/n/9 matplot(p, p.adj, ylab="p.adjust(p, meth)", type = "l", asp = 1, lty = 1:6, col = 1:7,[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 20429--20429 [] \T1/pcr/m/n/9 main = "P-value adjustments [log-log]", log = "xy", xl im=lim, ylim=lim, las=1)[] [1664] [1665] Underfull \hbox (badness 1337) in paragraph at lines 20539--20542 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1666] [1667] [1668] [1669] [1670] Overfull \hbox (0.78088pt too wide) in paragraph at lines 20863--20863 [] \T1/pcr/m/n/10 par.fit = list(col = "red", cex = 1.5, pch = 13, lwd = 1.5),[] [1671] [1672] Overfull \hbox (24.78088pt too wide) in paragraph at lines 20950--20950 [] \T1/pcr/m/n/10 expression("Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s dist vs Leverage* " * h[ii] / (1 - h[ii]))),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 20952--20952 [] \T1/pcr/m/n/10 panel.smooth(x, y, iter=iter.smooth, ...) else panel.raw,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 20954--20954 [] \T1/pcr/m/n/10 ask = prod(par("mfcol")) < length(which) && dev.interact ive(),[] [1673] Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 "bottomleft", legend = "Cook\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 s di stance", lty = cook.lty, Underfull \hbox (badness 10000) in paragraph at lines 21019--21025 \T1/pcr/m/n/10 col = cook.col, text.col = cook.col, bty = "n", x.intersp Underfull \hbox (badness 10000) in paragraph at lines 21027--21033 []\T1/ptm/m/n/10 the num-ber of ro-bust-ness it-er-a-tions, the ar-gu-ment []\T 1/pcr/m/n/10 iter []\T1/ptm/m/n/10 in Underfull \hbox (badness 10000) in paragraph at lines 21039--21042 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 1 or 2, to be used in []\T1/pcr/m /n/10 ylim <- [1674] [1675] [1676] [1677] Overfull \hbox (9.78043pt too wide) in paragraph at lines 21309--21309 []\T1/pcr/m/n/9 nlmod <- nls(y ~ Const + A * exp(B * x), start=list(Const=100 , A=10, B=1))[] [1678] [1679] Overfull \hbox (0.78088pt too wide) in paragraph at lines 21443--21443 [] \T1/pcr/m/n/10 main = NULL, ci.col = "blue", ci.lty = 3, ...)[] Underfull \hbox (badness 1194) in paragraph at lines 21453--21456 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1680] Underfull \hbox (badness 1107) in paragraph at lines 21511--21513 []\T1/ptm/m/n/10 numeric vec-tor of ab-scissa val-ues at which to eval-u-ate [] \T1/pcr/m/n/10 x[]\T1/ptm/m/n/10 . De-faults to [1681] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21566--21566 []\T1/pcr/m/n/9 plot(sfun.2);plot(sfun.2, xval = tt, add = TRUE, col = "orange ") # all colors[] [1682] Overfull \hbox (31.3804pt too wide) in paragraph at lines 21573--21573 []\T1/pcr/m/n/9 legend(2.5, 1.9, paste("f =", c(0, 0.2, 1)), col = 1:3, lty = 1, y.intersp = 1)[] [1683] Overfull \hbox (20.58041pt too wide) in paragraph at lines 21667--21667 []\T1/pcr/m/n/9 title("plot(ts(..), axes=FALSE, ann=FALSE, frame.plot=TRUE, ma r..., oma...)")[] [1684] [1685] Overfull \hbox (4.38043pt too wide) in paragraph at lines 21799--21799 [] \T1/pcr/m/n/9 ppois(10*(15:25), lambda = 100, lower.tail = FALSE) # no cancellation[] [1686] Underfull \hbox (badness 7740) in paragraph at lines 21862--21864 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/pcr/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 "Comparison of [1687] Overfull \hbox (6.78088pt too wide) in paragraph at lines 21910--21910 []\T1/pcr/m/n/10 poly(x, ..., degree = 1, coefs = NULL, raw = FALSE, simple = FALSE) [1688] Underfull \hbox (badness 10000) in paragraph at lines 21972--21974 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 poly(*, simple=TRUE)[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 polym(*, coefs=)[]\T1/ptm/m/n/10 , and Overfull \hbox (4.38043pt too wide) in paragraph at lines 22012--22012 [] \T1/pcr/m/n/9 zm <- zapsmall(polym ( 1:4, c(1, 4:6), degree = 3)) # or just poly():[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 22017--22017 []\T1/pcr/m/n/9 ## poly(, df) --- used to fail till July 14 (vive la F rance!), 2017:[] [1689] [1690] [1691] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22166--22166 [] \T1/pcr/m/n/10 prob = if (is.null(n)) NULL else rep.int( 1/n, n),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 22168--22168 [] \T1/pcr/m/n/10 blocks = if (is.null(prob)) 1 else NCOL(p rob),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22169--22169 [] \T1/pcr/m/n/10 strata_ratio = 1, delta = NULL, mu = 0, s ig.level = 0.05,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 22171--22171 [] \T1/pcr/m/n/10 link = c("logit", "probit", "cloglog", "l oglog"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22172--22172 [] \T1/pcr/m/n/10 alternative = c("two.sided", "less", "gre ater"), nsim = 100,[] [1692] Underfull \hbox (badness 1337) in paragraph at lines 22206--22209 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1693] [1694] [1695] [1696] [1697] [1698] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22617--22617 [] \T1/pcr/m/n/10 xlab = paste("Cumulative probabilities for", deparse1( substitute(x))),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 22618--22618 [] \T1/pcr/m/n/10 ylab = paste("Cumulative probabilities for", deparse1( substitute(y))),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 22620--22620 [] \T1/pcr/m/n/10 conf.args = list(link = "logit", type = "Wald", col = NA, border = NULL))[] [1699] [1700] Overfull \hbox (25.98041pt too wide) in paragraph at lines 22721--22721 []\T1/pcr/m/n/9 nd$y <- rnorm(nrow(nd), mean = c(0, .5)[nd$groups], sd = c(1, 1.5)[nd$groups])[] [1701] [1702] [1703] [1704] [1705] Overfull \hbox (58.38037pt too wide) in paragraph at lines 23127--23127 [] \T1/pcr/m/n/9 all.equal(pz3$sdev, pZ$sdev, tolerance = 1e-15)) # e xactly equal typically[] [1706] Underfull \hbox (badness 6859) in paragraph at lines 23195--23202 [][][]\T1/pcr/m/n/10 predict.glm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 p redict.lm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.loess[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.nls[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 predict.poly[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23206--23212 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/pcr/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1707] [1708] [1709] [1710] [1711] Overfull \hbox (54.78088pt too wide) in paragraph at lines 23501--23501 [] \T1/pcr/m/n/10 rankdeficient = c("warnif", "simple", "non-estim", "N A", "NAwarn"),[] Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string spec-i-fy-ing what should hap-pen in the Underfull \hbox (badness 10000) in paragraph at lines 23527--23530 \T1/ptm/m/n/10 case of a rank de-fi-cient model, i.e., when []\T1/pcr/m/n/10 ob ject$rank < [1712] Underfull \hbox (badness 5832) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 cases, i.e., vec-tors not in the same pre-dic-tor sub-space as t he Underfull \hbox (badness 8151) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 orig-i-nal data (with tol-er-ance []\T1/pcr/m/n/10 tol[]\T1/ptm/ m/n/10 ). In that case, the non- Underfull \hbox (badness 1184) in paragraph at lines 23532--23537 \T1/ptm/m/n/10 estimable in-dices are also re-turned as at-tribute []\T1/pcr/m/ n/10 "non-estim" []\T1/ptm/m/n/10 (see [1713] [1714] [1715] [1716] [1717] [1718] [1719] Overfull \hbox (48.78088pt too wide) in paragraph at lines 24000--24000 [] \T1/pcr/m/n/10 subset = rep_len(TRUE, nrow(as.matrix(x))), fix_sign = TRUE, ...)[] [1720] [1721] [1722] [1723] Overfull \hbox (0.78088pt too wide) in paragraph at lines 24288--24288 [] \T1/pcr/m/n/10 has.Pvalue = nc >= 4L && length(cn <- colnames(x )) &&[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 24289--24289 [] \T1/pcr/m/n/10 substr(cn[nc], 1L, 3L) %in% c("Pr(" , "p-v"),[] [1724] [1725] [1726] [1727] [1728] [1729] [1730] Underfull \hbox (badness 1337) in paragraph at lines 24696--24702 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1731] [1732] [1733] [1734] [1735] Overfull \hbox (15.18042pt too wide) in paragraph at lines 25005--25005 []\T1/pcr/m/n/9 with(d, qqplot(Female, Male, pch = 19, xlim = c(-31, 31), ylim = c(-31, 31),[] [1736] [1737] [1738] [1739] Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 []\T1/ptm/m/n/10 Wicklin R (2017). ``Sam-ple Quan-tiles: A Com-par-i-son of 9 D ef-i-ni-tions.'' Underfull \hbox (badness 10000) in paragraph at lines 25349--25353 \T1/ptm/m/n/10 SAS Blog. [][]$\T1/pcr/m/n/10 https : / / blogs . sas . com / co ntent / iml / 2017 / 05 / 24 / Underfull \hbox (badness 10000) in paragraph at lines 25354--25355 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/pcr/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ [1740] [1741] Overfull \hbox (48.78088pt too wide) in paragraph at lines 25464--25464 [] \T1/pcr/m/n/10 method = c("non.compact", "row.compact", "col.compact" , "compact"),[] [1742] Underfull \hbox (badness 1028) in paragraph at lines 25522--25525 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to or from meth-ods; for []\T 1/pcr/m/n/10 write() []\T1/ptm/m/n/10 and [1743] [1744] Underfull \hbox (badness 10000) in paragraph at lines 25638--25641 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by [1745] Underfull \hbox (badness 7099) in paragraph at lines 25693--25695 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 reorder[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = [1746] Underfull \hbox (badness 7099) in paragraph at lines 25757--25759 []\T1/ptm/m/n/10 This, as [][][]\T1/pcr/m/n/10 relevel[][][]()[]\T1/ptm/m/n/10 , is a spe-cial case of sim-ply call-ing [][][]\T1/pcr/m/n/10 factor[][][](x, l evels = Overfull \hbox (31.3804pt too wide) in paragraph at lines 25792--25792 []\T1/pcr/m/n/9 bymedianR <- with(InsectSprays, reorder(spray, count, median, decreasing=TRUE))[] [1747] [1748] Overfull \hbox (9.78043pt too wide) in paragraph at lines 25868--25868 []\T1/pcr/m/n/9 plot(reorder(dd, 10:1, agglo.FUN = mean), main = "reorder(dd, 10:1, mean)")[] [1749] [1750] Overfull \hbox (0.78088pt too wide) in paragraph at lines 25985--25985 []\T1/pcr/m/n/10 # varying = ___, # list / matrix / vector (use with care)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 25986--25986 []\T1/pcr/m/n/10 # v.names = ___, # vector of variable names in long format[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 25987--25987 []\T1/pcr/m/n/10 # timevar, times, # name / values of constructed time variable[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 25988--25988 []\T1/pcr/m/n/10 # idvar, ids) # name / values of constructed id v ariable[] [1751] [1752] Underfull \hbox (badness 10000) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 stack[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 aperm[] [][][]\T1/ptm/m/n/10 ; [][][]\T1/pcr/m/n/10 relist[][][] []\T1/ptm/m/n/10 for r e-shap-ing the re-sult of [][][]\T1/pcr/m/n/10 unlist[][][][]\T1/ptm/m/n/10 . [ ][][]\T1/pcr/m/n/10 xtabs[][][] []\T1/ptm/m/n/10 and Underfull \hbox (badness 2495) in paragraph at lines 26145--26150 [][][]\T1/pcr/m/n/10 as.data.frame.table[][][] []\T1/ptm/m/n/10 for cre-at-ing con-tin-gency ta-bles and con-vert-ing them back to Overfull \hbox (15.18042pt too wide) in paragraph at lines 26158--26158 []\T1/pcr/m/n/9 ## long to wide (direction = "wide") requires idvar and timeva r at a minimum[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 26159--26159 []\T1/pcr/m/n/9 reshape(Indometh, direction = "wide", idvar = "Subject", timev ar = "time")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 26178--26178 []\T1/pcr/m/n/9 reshape(df, timevar = "visit", idvar = "id", direction = "wide ", v.names = "x")[] [1753] [1754] Overfull \hbox (60.78088pt too wide) in paragraph at lines 26284--26284 [] \T1/pcr/m/n/10 na.action = c("+Big_alternate", "-Big_alternate", "na. omit", "fail"),[] Underfull \hbox (badness 1033) in paragraph at lines 26327--26333 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1755] Underfull \hbox (badness 10000) in paragraph at lines 26348--26351 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/pcr/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/pcr/m/n/10 y[j] = [1756] Overfull \hbox (9.78043pt too wide) in paragraph at lines 26428--26428 []\T1/pcr/m/n/9 plot(myNHT, type = "b", ylim = c(48, 60), main = "Running Medi ans Example")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26454--26454 []\T1/pcr/m/n/9 ## An example with initial NAs - used to fail badly (notably f or "Turlach"):[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 26466--26466 []\T1/pcr/m/n/9 matplot(y = cbind(x15, rT15), type = "b", ylim = c(1,9), pch=1 :5, xlab = NA,[] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \vbox (badness 10000) has occurred while \output is active [1763] [1764] Underfull \hbox (badness 6268) in paragraph at lines 26932--26937 [][][]\T1/pcr/m/n/10 SSasympOrig[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 S Sbiexp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfol[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSfpl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSgo mpertz[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 SSlogis[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 SSmicmen[][][][]\T1/ptm/m/n/10 , [1765] [1766] [1767] Underfull \hbox (badness 1867) in paragraph at lines 27140--27142 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 PP Underfull \hbox (badness 10000) in paragraph at lines 27156--27160 \T1/pcr/m/n/10 <- sum(!is.na([][]coef[][][](object))) []\T1/ptm/m/n/10 -- where in older \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions this was [1768] Overfull \hbox (20.58041pt too wide) in paragraph at lines 27198--27198 []\T1/pcr/m/n/9 sigma(lm1) # ~= 7.165 = "Residual standard error" printed fr om summary(lm1)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 27205--27205 []\T1/pcr/m/n/9 stopifnot(all.equal(sigma(fm.DN1), summary(fm.DN1)$sigma, tole rance=1e-15))[] [1769] [1770] [1771] Underfull \hbox (badness 2495) in paragraph at lines 27388--27397 []\T1/ptm/m/n/10 For an in-verse gaus-sian GLM the model as-sumed is $\OML/cmm/ m/it/10 IG\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 ^^V[]; ^^Uw[]\OT1/cmr/m/n/10 )$ \T1 /ptm/m/n/10 (see [][]$\T1/pcr/m/n/10 https : / / en . [1772] [1773] Overfull \hbox (24.78088pt too wide) in paragraph at lines 27555--27555 [] \T1/pcr/m/n/10 twiceit = FALSE, endrule = c("Tukey", "copy"), do.ends = FALSE)[] Underfull \hbox (badness 1412) in paragraph at lines 27562--27564 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing the kind of smoother re-qui red; de-faults to [1774] [1775] Overfull \hbox (25.98041pt too wide) in paragraph at lines 27648--27648 []\T1/pcr/m/n/9 matlines(cbind(smooth(x, "3R"), smooth(x, "S"), smooth(x, "3RS S"), smooth(x)))[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 27673--27673 []\T1/pcr/m/n/10 smooth.spline(x, y = NULL, w = NULL, df, spar = NULL, lambda = NULL, cv = FALSE, Overfull \hbox (66.78088pt too wide) in paragraph at lines 27676--27676 [] \T1/pcr/m/n/10 control.spar = list(), tol = 1e-6 * IQR(x), kee p.stuff = FALSE)[] [1776] [1777] [1778] Overfull \hbox (6.78088pt too wide) in paragraph at lines 27901--27901 [] \T1/pcr/m/n/10 nx <- length(x) - sum(duplicated( round((x - mean(x)) / t ol) ))[] Underfull \hbox (badness 2547) in paragraph at lines 27905--27911 []\T1/ptm/m/n/10 The de-fault []\T1/pcr/m/n/10 all.knots = FALSE []\T1/ptm/m/n/ 10 and []\T1/pcr/m/n/10 nknots = .nknots.smspl[]\T1/ptm/m/n/10 , en-tails us-in g only [1779] Overfull \hbox (4.38043pt too wide) in paragraph at lines 27958--27958 []\T1/pcr/m/n/9 plot(dist ~ speed, data = cars, main = "data(cars) & smoothi ng splines")[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 27979--27979 []\T1/pcr/m/n/9 with(cars.spl$fit, min + range * knot[-c(1:3, nk+1 +1:3)]) # = = unique(cars$speed)[] [1780] [1781] [1782] Overfull \hbox (0.78088pt too wide) in paragraph at lines 28174--28174 []\T1/pcr/m/n/10 spec.ar(x, n.freq, order = NULL, plot = TRUE, na.action = na. fail, [1783] [1784] [1785] [1786] Underfull \hbox (badness 10000) in paragraph at lines 28446--28454 \T1/ptm/m/n/10 This makes the spec-tral den-sity a den-sity over the range []\T 1/pcr/m/n/10 (-frequency(x)/2, [1787] [1788] Overfull \hbox (36.78088pt too wide) in paragraph at lines 28570--28570 [] \T1/pcr/m/n/10 method = c("fmm", "periodic", "natural", "monoH.FC" , "hyman"),[] [1789] [1790] [1791] Overfull \hbox (69.18036pt too wide) in paragraph at lines 28752--28752 []\T1/pcr/m/n/9 set.seed(8); x <- sort(round(rnorm(30), 1)); y <- round(sin(pi * x) + rnorm(30)/10, 3)[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 28758--28758 []\T1/pcr/m/n/9 plot(x, y, main = "spline(x,y, ties=list(\"ordered\", mean)) for when x has ties")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28767--28767 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "monoH.FC")(x), add = TRUE, c ol = 3, n = 1001)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 28768--28768 []\T1/pcr/m/n/9 curve(splinefun(x., y., method = "hyman") (x), add = TRUE, c ol = 4, n = 1001)[] Underfull \vbox (badness 10000) has occurred while \output is active [1792] Underfull \hbox (badness 2922) in paragraph at lines 28837--28842 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1793] Overfull \hbox (9.78043pt too wide) in paragraph at lines 28874--28874 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5.2), xlim = c(-.3, 5),[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 28877--28877 [] \T1/pcr/m/n/9 {f[phi](x) == phi[1] + (phi[2]-phi[1])*~e^ {-e^{phi[3]}*~x}}))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 28886--28886 [] \T1/pcr/m/n/9 c(0 , 1 ), 1, length = 0.08, angle = 25); text(0. 5, 1, quote(1))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 28887--28887 [] \T1/pcr/m/n/9 y0 <- 1 + 4*exp(-3/4) ; t.5 <- log(2) / exp(-3/4) ; AR2 <- 3 # (Asym + R0)/2[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 28891--28891 [] \T1/pcr/m/n/9 axis(2, at = c(1,AR2,5), labels= expression(phi[2], frac(phi [1]+phi[2],2), phi[1]),[] [1794] Underfull \hbox (badness 3240) in paragraph at lines 28945--28948 [][][]\T1/pcr/m/n/10 nls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 selfStart [][][][]\T1/ptm/m/n/10 ; []\T1/pcr/m/n/10 example(SSasympOff) []\T1/ptm/m/n/10 gives graph show-ing the []\T1/pcr/m/n/10 SSasympOff Overfull \hbox (36.7804pt too wide) in paragraph at lines 28966--28966 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOff(xx, Asym = 5, lrc = log( 0.4), c0 = 3/4)) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 28969--28969 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(-.5,6), xlim = c(-1, 8),[] [1795] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29052--29052 [] \T1/pcr/m/n/9 stopifnot( all.equal(yy, SSasympOrig(xx, Asym = 5, lrc = log (log(2)))) )[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29056--29056 [] \T1/pcr/m/n/9 plot(xx, yy, type = "l", axes = FALSE, ylim = c(0,5), xlim = c(-1/4, 5),[] [1796] Overfull \hbox (58.38037pt too wide) in paragraph at lines 29066--29066 [] \T1/pcr/m/n/9 axis(2, at = 5*c(1/2,1), labels= expression(frac(phi[1],2), phi[1]), pos=0, las=1)[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 29071--29071 [] \T1/pcr/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 2922) in paragraph at lines 29107--29113 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1797] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29129--29129 []\T1/pcr/m/n/9 print(getInitial(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), dat a = Indo.1),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29145--29145 [] \T1/pcr/m/n/9 legend("topright", c("y1+y2", "y1 = 3.5 * exp(-4*x)", "y2 = 1.5 * exp(-x)"),[] Overfull \hbox (74.58035pt too wide) in paragraph at lines 29159--29159 []\T1/pcr/m/n/9 ## Fails by default (scaleOffset=0) on most platforms {also af ter increasing maxiter !}[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 29161--29161 [] \T1/pcr/m/n/9 nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, trace=TRUE)[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 29167--29167 [] \T1/pcr/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol= 1e-11, nDcentral=TRUE), trace=TRUE)[] [1798] [1799] Overfull \hbox (30.78088pt too wide) in paragraph at lines 29278--29278 []\T1/pcr/m/n/10 Dose * exp(lKe+lKa-lCl) * (exp(-exp(lKe)*input) - exp(-exp(lK a)*input)) [1800] Underfull \hbox (badness 2922) in paragraph at lines 29340--29345 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1801] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29378--29378 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "A", phi[2] == "B", phi[3] == "xm id", phi[4] == "scal")))[] [1802] Underfull \hbox (badness 2922) in paragraph at lines 29427--29432 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29458--29458 []\T1/pcr/m/n/9 lines(x, do.call(SSgompertz, c(list(x=x), coef(fm1))), col = " red", lwd=2)[] [1803] Underfull \hbox (badness 2922) in paragraph at lines 29492--29497 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (25.98041pt too wide) in paragraph at lines 29517--29517 []\T1/pcr/m/n/9 ## Initial values are in fact the converged one here, "Number of iter...: 0" :[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 29521--29521 []\T1/pcr/m/n/9 fm2 <- update(fm1, control=nls.control(tol = 1e-9, warnOnly=TR UE), trace = TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29541--29541 [] \T1/pcr/m/n/9 mtext(quote(list(phi[1] == "Asym", phi[2] == "xmid", phi[3] == "scal")))[] [1804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 29551--29551 [] \T1/pcr/m/n/9 segments(c(2,2.6,2.6), c(0, 2.5,3.5), # NB. SSlogis(x = xmid = 2) = 2.5[] Underfull \hbox (badness 2922) in paragraph at lines 29586--29591 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1805] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29608--29608 []\T1/pcr/m/n/9 print(getInitial(rate ~ SSmicmen(conc, Vm, K), data = PurTrt), digits = 3)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 29626--29626 [] \T1/pcr/m/n/9 ann = FALSE, axes = FALSE, main = "Parameters in the SS micmen model")[] [1806] Underfull \hbox (badness 6493) in paragraph at lines 29678--29683 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion Overfull \hbox (4.38043pt too wide) in paragraph at lines 29710--29710 []\T1/pcr/m/n/9 getInitial(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 29712--29712 []\T1/pcr/m/n/9 fm1 <- nls(weight ~ SSweibull(Time, Asym, Drop, lrc, pwr), dat a = Chick.6)[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 29716--29716 []\T1/pcr/m/n/9 plot(weight ~ Time, Chick.6, xlim = c(0, 21), main = "SSweibul l() fit to Chick.6")[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 29719--29719 []\T1/pcr/m/n/9 As <- coef(fm1)[["Asym"]]; abline(v = 0, h = c(As, As - coef(f m1)[["Drop"]]), lty = 3)[] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] [1818] [1819] [1820] Underfull \hbox (badness 3396) in paragraph at lines 30616--30618 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.glm"[]\T1/ptm/m/ n/10 , usu-ally, a re-sult of a call to [1821] [1822] [1823] Underfull \hbox (badness 2237) in paragraph at lines 30795--30797 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1824] [1825] Underfull \hbox (badness 2591) in paragraph at lines 30967--30969 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.nls"[]\T1/ptm/m/ n/10 , usu-ally the re-sult of a call to [1826] Underfull \hbox (badness 2237) in paragraph at lines 31013--31016 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /pcr/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1827] Overfull \hbox (48.78088pt too wide) in paragraph at lines 31086--31086 []\T1/pcr/m/n/10 supsmu(x, y, wt =, span = "cv", periodic = FALSE, bass = 0, t race = FALSE) [1828] [1829] Underfull \hbox (badness 3407) in paragraph at lines 31195--31199 []\T1/ptm/m/n/10 character vec-tor, one shorter than (the \T1/ptm/m/it/10 aug-m ented\T1/ptm/m/n/10 , see []\T1/pcr/m/n/10 corr []\T1/ptm/m/n/10 be-low) [1830] Overfull \hbox (47.58038pt too wide) in paragraph at lines 31265--31265 []\T1/pcr/m/n/9 symnum(ii, cutpoints = 2*(0:4), symbols = c(".", "-", "+", "$ "), show.max = TRUE)[] [1831] Underfull \hbox (badness 1337) in paragraph at lines 31328--31332 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1832] [1833] [1834] [1835] Overfull \hbox (9.78043pt too wide) in paragraph at lines 31618--31618 []\T1/pcr/m/n/9 persp(tt, ncp, ptn, zlim = 0:1, r = 2, phi = 20, theta = 200, main = t.tit,[] [1836] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31662--31662 [] \T1/pcr/m/n/10 use.factor.levels = TRUE, smooth = NULL, ylim = "com mon",[] [1837] Underfull \hbox (badness 1616) in paragraph at lines 31688--31691 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1838] Overfull \hbox (20.58041pt too wide) in paragraph at lines 31767--31767 []\T1/pcr/m/n/9 termplot(model, partial.resid = TRUE, smooth = panel.smooth, s pan.smth = 1/4)[] Underfull \hbox (badness 10000) in paragraph at lines 31805--31810 []\T1/ptm/m/n/10 There are meth-ods for classes []\T1/pcr/m/n/10 "aovlist"[]\T1 /ptm/m/n/10 , []\T1/pcr/m/n/10 "terms"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 " formula" []\T1/ptm/m/n/10 (see [1839] Overfull \hbox (0.78088pt too wide) in paragraph at lines 31845--31845 []\T1/pcr/m/n/10 terms(x, specials = NULL, abb = NULL, data = NULL, neg.out = TRUE,[] [1840] [1841] [1842] [1843] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32096--32096 []\T1/pcr/m/n/10 toeplitz2(x, nrow = length(x) +1 - ncol, ncol = length(x) +1 - nrow)[] Underfull \hbox (badness 2913) in paragraph at lines 32102--32106 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 toeplitz(x, *)[]\T1/ptm/m/n/10 : the firs t col-umn of the Toeplitz ma-trix; for [1844] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32139--32139 []\T1/pcr/m/n/9 # Matrix of character (could also have logical, raw, complex . .) {also warning}:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 32152--32152 [] \T1/pcr/m/n/9 colnames(W) <- paste0(",", if(n <= 9) 1:n else c(1:9, lette rs[seq_len(n-9)]))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 32163--32163 []\T1/pcr/m/n/9 y.hat <- W. %*% y # y.hat := smoothed(y) ("mass preserving" -> longer than y)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 32165--32165 []\T1/pcr/m/n/9 plot(x,y, type="b", xlim=c(1,m)); curve(f(x), 1,n, col="gray", lty=2, add=TRUE)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32197--32197 [] \T1/pcr/m/n/10 class = if(nseries > 1) c("mts", "ts", "matrix", "array") else "ts",[] [1845] [1846] Underfull \hbox (badness 1655) in paragraph at lines 32275--32278 []\T1/pcr/m/n/10 is.mts(x) []\T1/ptm/m/n/10 tests if an ob-ject []\T1/pcr/m/n/1 0 x []\T1/ptm/m/n/10 is a mul-ti-vari-ate time se-ries, i.e., ful-fills []\T1/p cr/m/n/10 is.ts(x)[]\T1/ptm/m/n/10 , Overfull \hbox (20.58041pt too wide) in paragraph at lines 32314--32314 []\T1/pcr/m/n/9 utils:: methods(class = "ts") # all functions with methods ava ilable for "ts"[] [1847] [1848] [1849] [1850] [1851] Overfull \hbox (12.78088pt too wide) in paragraph at lines 32651--32651 []\T1/pcr/m/n/10 ptukey(q, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE) Overfull \hbox (12.78088pt too wide) in paragraph at lines 32652--32652 []\T1/pcr/m/n/10 qtukey(p, nmeans, df, nranges = 1, lower.tail = TRUE, log.p = FALSE)[] [1852] [1853] [1854] [1855] [1856] Overfull \hbox (30.78088pt too wide) in paragraph at lines 32953--32953 [] \T1/pcr/m/n/10 extendInt = c("no", "yes", "downX", "upX"), check.con v = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 32954--32954 [] \T1/pcr/m/n/10 tol = .Machine$double.eps^0.25, maxiter = 1000, trace = 0)[] [1857] [1858] Overfull \hbox (31.3804pt too wide) in paragraph at lines 33084--33084 []\T1/pcr/m/n/9 ##--- uniroot() with new interval extension + checking feature s: --------------[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 33093--33093 []\T1/pcr/m/n/9 ## where as \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 extendInt="yes"\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 simply first enlarges the search interval:[] Underfull \vbox (badness 10000) has occurred while \output is active [1859] [1860] [1861] Underfull \hbox (badness 1337) in paragraph at lines 33310--33314 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1862] [1863] [1864] [1865] [1866] [1867] [1868] [1869] Underfull \hbox (badness 1337) in paragraph at lines 33858--33862 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1870] [1871] [1872] Overfull \hbox (74.58035pt too wide) in paragraph at lines 34103--34103 []\T1/pcr/m/n/9 wilcox.test((4:2)/10, (3:1)/10, paired=TRUE, digits.rank = 9) # same ties as (4:2, 3:1)[] [1873] [1874] [1875] Overfull \hbox (138.78088pt too wide) in paragraph at lines 34276--34276 [] \T1/pcr/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1876] Overfull \hbox (0.78088pt too wide) in paragraph at lines 34362--34362 []\T1/pcr/m/n/10 xtabs(formula = ~., data = parent.frame(), subset, sparse = F ALSE, Overfull \hbox (0.78088pt too wide) in paragraph at lines 34364--34364 [] \T1/pcr/m/n/10 exclude = if(!addNA) c(NA, NaN), drop.unused.levels = F ALSE)[] [1877] [1878] [1879] [1880]) (./stats4-pkg.tex Chapter 11. [1881] [1882] Overfull \hbox (15.18042pt too wide) in paragraph at lines 182--182 []\T1/pcr/m/n/9 nLL <- function(lambda) with(ec50,-sum(stats::dpois(y, lambda, log = TRUE)))[] [1883] Overfull \hbox (25.98041pt too wide) in paragraph at lines 197--197 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf ), log = TRUE)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 205--205 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = ymax/(1+x/xhalf), log = TRUE)))[] Overfull \hbox (79.98035pt too wide) in paragraph at lines 225--225 [] \T1/pcr/m/n/9 with(ec50, -sum(stats::dpois(y, lambda = exp(lymax)/(1+x/e xp(lxhalf)), log = TRUE)))[] Underfull \vbox (badness 10000) has occurred while \output is active [1884] Overfull \hbox (4.38043pt too wide) in paragraph at lines 257--257 []\T1/pcr/m/n/9 summary(mle(mll_lm, lower=list(sigma = 0.01))) # alternative s pecification[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 281--281 []\T1/pcr/m/n/9 ## Boundary case: This works, but fails if limits are set clos er to 0 and 1[] Underfull \vbox (badness 10000) has occurred while \output is active [1885] [1886] [1887] [1888] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdas h.methods}) has been already used, duplicate ignored \relax l.506 ...Package \pkg{stats4}}{show.Rdash.methods} [1889] [1890] [1891]) (./tcltk-pkg.tex [1892] Chapter 12. [1893] [1894] [1895] [1896] [1897] Overfull \hbox (36.7804pt too wide) in paragraph at lines 370--370 []\T1/pcr/m/n/9 ls(envir = .TkRoot$env, all.names = TRUE) # .Tcl.args put a ca llback ref in here[] [1898] [1899] Underfull \vbox (badness 10000) has occurred while \output is active [1900] [1901] Underfull \hbox (badness 1292) in paragraph at lines 687--694 []\T1/pcr/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1902] [1903] [1904] [1905] Underfull \vbox (badness 10000) has occurred while \output is active [1906] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1100--1100 []\T1/pcr/m/n/9 eval.txt <- function() eval(str2lang(tclvalue(tkget(txt.w, "0. 0", "end"))))[] [1907] [1908] [1909] [1910] [1911] Underfull \hbox (badness 1189) in paragraph at lines 1428--1431 [][][]\T1/pcr/m/n/10 select.list[][][] []\T1/ptm/m/n/10 (a text ver-sion ex-cep t on Win-dows and the ma-cOS GUI), [][][]\T1/pcr/m/n/10 menu[][][] []\T1/ptm/m/ n/10 (whose [1912]) (./tools-pkg.tex Chapter 13. [1913] Overfull \hbox (9.78043pt too wide) in paragraph at lines 69--69 []\T1/pcr/m/n/9 ## is used for simple print methods in R, and as prototype for new methods.[] [1914] Underfull \hbox (badness 1253) in paragraph at lines 167--170 []\T1/pcr/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1915] Overfull \hbox (4.38043pt too wide) in paragraph at lines 218--218 []\T1/pcr/m/n/9 assertCondition(ff(), "error", "warning") # ok (quietly, catch ing warning)[] [1916] Underfull \hbox (badness 5147) in paragraph at lines 326--339 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 Underfull \hbox (badness 4792) in paragraph at lines 326--339 \T1/ptm/m/n/10 types of bib-li-o-graphic en-try sup-ported by [][][]\T1/pcr/m/n /10 bibentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou- Underfull \hbox (badness 2237) in paragraph at lines 326--339 \T1/ptm/m/n/10 tines de-scribed be-low. The for-mer must be named []\T1/pcr/m/n /10 formatArticle[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 formatBook[]\T1/ptm/m/n/10 , [1917] [1918] Overfull \hbox (42.78088pt too wide) in paragraph at lines 410--410 []\T1/pcr/m/n/10 buildVignette(file, dir = ".", weave = TRUE, latex = TRUE, ta ngle = TRUE, Underfull \hbox (badness 2460) in paragraph at lines 429--431 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1919] Underfull \hbox (badness 1142) in paragraph at lines 501--505 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1920] [1921] [1922] [1923] [1924] [1925] [1926] Underfull \hbox (badness 1024) in paragraph at lines 920--927 \T1/ptm/m/n/10 by \T1/pcr/m/n/10 \donttest\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \dont diff \T1/ptm/m/n/10 or \T1/pcr/m/n/10 \dontshow\T1/ptm/m/n/10 , and \T1/pcr/m/n /10 \title \T1/ptm/m/n/10 re-placed by \T1/pcr/m/n/10 \section \T1/ptm/m/n/10 o r [1927] Overfull \hbox (0.78088pt too wide) in paragraph at lines 992--992 []\T1/pcr/m/n/10 resaveRdaFiles(paths, compress = c("auto", "gzip", "bzip2", " xz"),[] [1928] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1047--1047 []\T1/pcr/m/n/9 bad <- is.na(res$ASCII) | res$ASCII | (res$size > 1e4 & res$co mpress == "none")[] [1929] [1930] [1931] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1298--1298 [] \T1/pcr/m/n/10 outputs = FALSE, sources = FALS E, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1299--1299 []\T1/pcr/m/n/10 check_packages_in_dir_details(dir, logs = NULL, drop_ok = TRU E, ...)[] [1932] Underfull \hbox (badness 1014) in paragraph at lines 1346--1348 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1352--1354 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1933] Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us- Underfull \hbox (badness 10000) in paragraph at lines 1389--1392 \T1/ptm/m/n/10 ing []\T1/pcr/m/n/10 summarize_check_packages_in_dir_results []\ T1/ptm/m/n/10 and Underfull \hbox (badness 10000) in paragraph at lines 1397--1400 []\T1/pcr/m/n/10 check_packages_in_dir []\T1/ptm/m/n/10 re-turns an ob-ject in- her-it-ing from class [1934] [1935] Underfull \hbox (badness 10000) in paragraph at lines 1544--1547 []\T1/pcr/m/n/10 codocClasses []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 codocData [ ]\T1/ptm/m/n/10 re-turn ob-jects of class []\T1/pcr/m/n/10 "codocClasses" []\T1 /ptm/m/n/10 and [1936] [1937] Underfull \hbox (badness 4647) in paragraph at lines 1726--1731 []\T1/pcr/m/n/10 CRAN_package_db() []\T1/ptm/m/n/10 re-turns a data frame with char-ac-ter columns con-tain-ing most Underfull \hbox (badness 7869) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' meta-data for the cu r-rent pack-ages in the CRAN pack-age repos-i- Underfull \hbox (badness 1681) in paragraph at lines 1726--1731 \T1/ptm/m/n/10 tory, in-clud-ing in par-tic-u-lar the De-scrip-tion and Main-ta iner in-for-ma-tion not pro-vided by [1938] Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 CRAN_current_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_aliases_db()[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 CRAN_rdx refs_db()[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 1803--1813 []\T1/pcr/m/n/10 CRAN_authors_db() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 CRAN_a rchive_db() []\T1/ptm/m/n/10 (also used by []\T1/pcr/m/n/10 R CMD check[]\T1/pt m/m/n/10 ) Underfull \hbox (badness 4120) in paragraph at lines 1803--1813 \T1/ptm/m/n/10 use []\T1/pcr/m/n/10 R_CRAN_SRC []\T1/ptm/m/n/10 rather than []\ T1/pcr/m/n/10 R_CRAN_WEB[]\T1/ptm/m/n/10 . The mir-ror to be used is re-ported by [1939] [1940] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1927--1927 [] \T1/pcr/m/n/10 utils::installed.packages(lib.loc, fields = "En hances"))[] Underfull \hbox (badness 7981) in paragraph at lines 1934--1942 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 1934--1942 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 1934--1942 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, [1941] [1942] [1943] [1944] [1945] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.2189 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSC MD}) has been already used, duplicate ignored \relax l.2190 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [1946] [1947] [1948] [1949] [1950] Underfull \hbox (badness 1142) in paragraph at lines 2531--2537 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 loadPkgRdMacros []\T1/ptm/m/n/10 func-tio n first looks for an []\T1/pcr/m/n/10 "RdMacros" []\T1/ptm/m/n/10 en-try in the pack-age [1951] Underfull \hbox (badness 2359) in paragraph at lines 2596--2603 []\T1/ptm/m/n/10 Package main-tain-ers can use these func-tions to em-ploy user and site spe-cific com-pi-la- Underfull \hbox (badness 1102) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 tion set-tings also for com-pi-la-tions not us-ing \T1/phv/m/n/1 0 R\T1/ptm/m/n/10 's mech-a-nisms (in par-tic-u-lar, cus-tom com- Underfull \hbox (badness 4168) in paragraph at lines 2596--2603 \T1/ptm/m/n/10 pi-la-tions in sub-di-rec-to-ries of `\T1/pcr/m/n/10 src\T1/ptm/ m/n/10 '), e.g., by adding con-fig-ure code call-ing \T1/phv/m/n/10 R \T1/ptm/m /n/10 with [1952] Underfull \hbox (badness 1342) in paragraph at lines 2647--2653 \T1/ptm/m/n/10 This al-lows e.g. the trans-la-tions shipped in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.x.y to be up-dated to those cur-rently in Underfull \hbox (badness 10000) in paragraph at lines 2672--2679 []\T1/pcr/m/n/10 matchConcordance []\T1/ptm/m/n/10 con-verts from out-put lo-ca -tions to source lo-ca-tions. The [1953] Underfull \hbox (badness 1259) in paragraph at lines 2736--2739 []\T1/ptm/m/n/10 The de-fault method of []\T1/pcr/m/n/10 as.Rconcordance []\T1/ ptm/m/n/10 searches for strings match-ing the pat-tern of Underfull \hbox (badness 1648) in paragraph at lines 2740--2746 []\T1/pcr/m/n/10 followConcordance []\T1/ptm/m/n/10 is used when a file is tran s-formed more than once. The first Underfull \hbox (badness 1708) in paragraph at lines 2740--2746 \T1/ptm/m/n/10 trans-for-ma-tion records a con-cor-dance in the file which is r ead as []\T1/pcr/m/n/10 prevConcordance[]\T1/ptm/m/n/10 . [1954] [1955] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2884--2884 []\T1/pcr/m/n/10 package_dependencies(packages = NULL, db = NULL, which = "str ong", Underfull \hbox (badness 7981) in paragraph at lines 2899--2907 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of Underfull \hbox (badness 10000) in paragraph at lines 2899--2907 []\T1/pcr/m/n/10 c("Depends", "Imports", "LinkingTo", "Suggests", Underfull \hbox (badness 1558) in paragraph at lines 2899--2907 \T1/pcr/m/n/10 "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string []\T1/pcr/m/n/1 0 "all" []\T1/ptm/m/n/10 is short-hand for that vec-tor, Overfull \hbox (15.18042pt too wide) in paragraph at lines 2935--2935 []\T1/pcr/m/n/9 myPkgs <- c("MASS", "Matrix", "KernSmooth", "class", "cluster" , "codetools")[] [1956] Overfull \hbox (18.78088pt too wide) in paragraph at lines 2968--2968 [] \T1/pcr/m/n/10 align = TRUE, character_only = TRUE, include_declarations = TRUE)[] [1957] [1958] [1959] [1960] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3272--3272 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macros", "system .Rd"),[] [1961] Underfull \hbox (badness 2486) in paragraph at lines 3317--3325 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion 3.2.0, User-d efined macros may be given in a sep-a-rate file us-ing [1962] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3373--3373 [] \T1/pcr/m/n/10 stylesheet = file.path(R.home("doc"), "html", "R-nav .css"),[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3374--3374 [] \T1/pcr/m/n/10 hooks = list(pkg_href = function(pkg) sprintf("%s.ht ml", pkg)),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 mathjax_config = file.path(R.home("doc"), "html", "m athjax-config.js"),[] [1963] [1964] [1965] [1966] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3644--3644 []\T1/pcr/m/n/10 checkDocFiles (package, dir, lib.loc = NULL, chkInternal = NULL) Overfull \hbox (0.78088pt too wide) in paragraph at lines 3648--3648 []\T1/pcr/m/n/10 checkRdContents (package, dir, lib.loc = NULL, chkInternal = NULL)[] [1967] [1968] [1969] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 fragment = FALSE, ..., writeEncoding = outputEncodin g != "UTF-8",[] [1970] Underfull \hbox (badness 1072) in paragraph at lines 3933--3935 []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec- tor of links, as re-turned by [1971] [1972] Underfull \hbox (badness 7667) in paragraph at lines 4104--4105 []\T1/ptm/m/n/10 The sym-bol to use as a bul-let in [1973] [1974] [1975] Overfull \hbox (72.78088pt too wide) in paragraph at lines 4276--4276 [] \T1/pcr/m/n/10 macros = file.path(R.home("share"), "Rd", "macro s", "system.Rd"))[] Underfull \hbox (badness 5417) in paragraph at lines 4314--4325 []\T1/ptm/m/n/10 By de-fault, the tags \T1/pcr/m/n/10 \S3method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \S4method\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \command\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \docType\T1/ptm/m/n/10 , \T1/pcr/m/n/10 \email\T1/ptm/m/n/10 , [1976] [1977] [1978] [1979] [1980] Underfull \hbox (badness 4108) in paragraph at lines 4586--4595 []\T1/ptm/m/n/10 This func-tion starts the in-ter-nal HTTP server, which runs o n the loop-back in-ter-face [1981] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4689--4689 [] \T1/pcr/m/n/10 types = c("examples", "tests", "vignett es"),[] [1982] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4692--4692 []\T1/pcr/m/n/10 testInstalledBasic(scope = c("basic", "devel", "both", "inter net", "all"),[] Underfull \hbox (badness 10000) in paragraph at lines 4717--4719 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [1983] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4776--4776 []\T1/pcr/m/n/9 (prio <- sapply(as.vector(pNms), packageDescription, fields = "Priority"))[] [1984] Underfull \hbox (badness 4954) in paragraph at lines 4841--4846 []\T1/ptm/m/n/10 On Unix-alikes, the de-fault op-tion for []\T1/pcr/m/n/10 texi 2dvi []\T1/ptm/m/n/10 is set from en-vi-ron-ment vari-able [1985] [1986] [1987] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5043--5043 []\T1/pcr/m/n/9 toTitleCase("ensemble tool for predictions from species distri bution models")[] Overfull \hbox (128.58029pt too wide) in paragraph at lines 5047--5047 []\T1/pcr/m/n/9 toTitleCase("a small fox is jumping") # "a Small Fox is .." (the \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 a\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 may cha nge)% i.e. BUG[] Overfull \hbox (69.18036pt too wide) in paragraph at lines 5051--5051 []\T1/pcr/m/n/9 toTitleCase("asking -- \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 is a smal l fox jumping?\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ") # ".. -- Is a Small ..." (fi ne)[] [1988] [1989] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5134--5134 [] \T1/pcr/m/n/10 "mac.binary", "win.binary"), verbose.level = as.integer(dry run),[] [1990] [1991] Underfull \hbox (badness 10000) in paragraph at lines 5318--5321 []\T1/ptm/m/n/10 optional char-ac-ter strings for the `[]\T1/pcr/m/n/10 Copyrig ht[]\T1/ptm/m/n/10 ' and [1992] Underfull \hbox (badness 6859) in paragraph at lines 5334--5339 []\T1/ptm/m/n/10 All ex-ist-ing files in di-rec-tory []\T1/pcr/m/n/10 po []\T1/ ptm/m/n/10 with names `\T1/pcr/m/n/10 R-\T1/ptm/m/sl/10 lang\T1/pcr/m/n/10 .po\ T1/ptm/m/n/10 ' are up-dated from Underfull \hbox (badness 1184) in paragraph at lines 5342--5348 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/pcr/m/n/10 po /\T1/ptm/m/sl/10 pkgname\T1/pcr/m/n/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. T he Underfull \hbox (badness 2941) in paragraph at lines 5342--5348 \T1/ptm/m/n/10 `\T1/pcr/m/n/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in t he pack-age are ex-am-ined to cre-ate a file [1993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5451--5451 []\T1/pcr/m/n/9 parse_URI_reference(c("foo://example.com:8042/over/there?name= ferret#nose",[] [1994] [1995] [1996] Underfull \hbox (badness 10000) in paragraph at lines 5647--5649 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 vignetteEngine[][][][]\T1/ptm/m/n/10 , such as []\T1/pcr/m/n/10 "utils::Sweave" []\T1/ptm/m/n/10 or [1997] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5675--5675 [] \T1/pcr/m/n/10 verbose = FALSE, unpacked = FALSE, subdirs = F ALSE,[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5676--5676 [] \T1/pcr/m/n/10 latestOnly = TRUE, addFiles = grepl("binary", type),[] Underfull \hbox (badness 3240) in paragraph at lines 5689--5692 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to be used in the `\T 1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/10 ', Underfull \hbox (badness 1742) in paragraph at lines 5693--5703 []\T1/pcr/m/n/10 "Package"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Version"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Priority"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Depe nds"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Imports"[]\T1/ptm/m/n/10 , [1998] Underfull \hbox (badness 1127) in paragraph at lines 5740--5746 []\T1/pcr/m/n/10 write_PACKAGES []\T1/ptm/m/n/10 scans the named di-rec-tory fo r R pack-ages, ex-tracts in-for-ma-tion from Underfull \hbox (badness 1635) in paragraph at lines 5740--5746 \T1/ptm/m/n/10 each pack-age's `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file , and writes this in-for-ma-tion into the `\T1/pcr/m/n/10 PACKAGES\T1/ptm/m/n/1 0 ', Underfull \hbox (badness 1571) in paragraph at lines 5768--5772 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by Underfull \hbox (badness 2772) in paragraph at lines 5794--5799 \T1/ptm/m/n/10 and `\T1/pcr/m/n/10 PACKAGES.gz\T1/ptm/m/n/10 ' files. See [][][ ]\T1/pcr/m/n/10 update_PACKAGES[][][] []\T1/ptm/m/n/10 for ef-fi-ciently up-dat -ing ex-ist-ing [1999] [2000] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5929--5929 [] \T1/pcr/m/n/9 " stop(errorCondition(gettext(\TS1/pcr/m/n/9 '\T1/pcr/m/n /9 needs Deep Thought\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ), class=\TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 myError\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ))",[] [2001] [2002]) (./utils-pkg.tex Chapter 14. Underfull \hbox (badness 1072) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/pcr/m/n/10 insertions[]\T1/ptm/m/n/10 ', [2003] [2004] [2005] [2006] Overfull \hbox (4.38043pt too wide) in paragraph at lines 260--260 []\T1/pcr/m/n/9 find("cor", numeric = TRUE) # numbers with these names[] [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/ptm/m/n/10 are []\T1/pcr/m/n/10 c("vertical", "horizontal", "cascade", "min imize", Underfull \hbox (badness 10000) in paragraph at lines 384--386 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 list[][][] []\T1/ptm/m/n/10 of win-dow han-dles, by de-fault pro-duced by [2009] Overfull \hbox (9.78043pt too wide) in paragraph at lines 450--450 []\T1/pcr/m/n/9 # This default is useful only in SDI mode: it will tile any F irefox window[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 452--452 []\T1/pcr/m/n/9 .arrangeWindowsDefaults <- list(c("R", "all"), pattern = c("", "Firefox"))[] Overfull \hbox (60.78088pt too wide) in paragraph at lines 469--469 [] \T1/pcr/m/n/10 prompts = getOption("askYesNo", gettext(c("Yes", "No ", "Cancel"))),[] [2010] [2011] [2012] Overfull \hbox (6.78088pt too wide) in paragraph at lines 690--690 []\T1/pcr/m/n/10 aspell_package_R_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 691--691 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 692--692 []\T1/pcr/m/n/10 aspell_package_C_files(dir, ignore = character(), control = l ist(),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 693--693 [] \T1/pcr/m/n/10 program = NULL, dictionaries = charact er())[] [2013] Underfull \hbox (badness 10000) in paragraph at lines 727--733 []\T1/ptm/m/n/10 Functions []\T1/pcr/m/n/10 aspell_package_Rd_files[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 4416) in paragraph at lines 727--733 []\T1/pcr/m/n/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 a spell_package_C_files []\T1/ptm/m/n/10 per-form spell check- [2014] Overfull \hbox (6.78088pt too wide) in paragraph at lines 796--796 [] \T1/pcr/m/n/10 fields = getOption("available_packages_fie lds"),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 801--801 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 841--844 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' [2015] Underfull \hbox (badness 1552) in paragraph at lines 935--941 []\T1/ptm/m/n/10 A char-ac-ter ma-trix with one row per pack-age, row names the pack-age names and col- [2016] Overfull \hbox (31.3804pt too wide) in paragraph at lines 961--961 []\T1/pcr/m/n/9 db <- available.packages(repos = findCRANmirror("web"), filter s = "duplicates")[] [2017] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1063--1063 []\T1/pcr/m/n/10 bibentry(bibtype, textVersion = NULL, header = NULL, footer = NULL, [2018] [2019] Underfull \hbox (badness 7649) in paragraph at lines 1137--1143 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if Bib-TeX co de should be given ad-di-tion-ally; Underfull \hbox (badness 5533) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 cur-rently ap-plies only to []\T1/pcr/m/n/10 style = "citation"[ ]\T1/ptm/m/n/10 . The de-fault for Underfull \hbox (badness 4739) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 the []\T1/pcr/m/n/10 print() []\T1/ptm/m/n/10 method de-pends on the num-ber of (bib) en-tries and Underfull \hbox (badness 1215) in paragraph at lines 1137--1143 \T1/ptm/m/n/10 For ex-am-ple, to see no Bib-TeX at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1146--1148 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2020] Underfull \hbox (badness 10000) in paragraph at lines 1264--1267 []\T1/ptm/m/n/10 The DOI ([][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Digital _ Object _ [2021] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1346--1346 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2022] [2023] [2024] [2025] [2026] [2027] [2028] Underfull \hbox (badness 3919) in paragraph at lines 1755--1758 []\T1/ptm/m/n/10 the re-cip-i-ent's email ad-dress, which is by de-fault in-fer red from the [2029] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1855--1855 [] \T1/pcr/m/n/9 data = infert, family = b inomial())))[] [2030] Overfull \hbox (0.78088pt too wide) in paragraph at lines 1887--1887 [] \T1/pcr/m/n/10 md5sum = FALSE, digest = NULL, full.names = length(path) > 1,[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 1890--1890 []\T1/pcr/m/n/10 changedFiles(before, after, path = before$path, timestamp = b efore$timestamp,[] [2031] [2032] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2036--2036 []\T1/pcr/m/n/9 snapshot <- fileSnapshot(dir, timestamp = tempfile("timestamp" ), md5sum=TRUE)[] [2033] Underfull \hbox (badness 2277) in paragraph at lines 2105--2110 []\T1/pcr/m/n/10 charClass []\T1/ptm/m/n/10 was added in \T1/phv/m/n/10 R \T1/p tm/m/n/10 4.1.0. A less di-rect way to ex-am-ine char-ac-ter classes Overfull \hbox (36.7804pt too wide) in paragraph at lines 2137--2137 []\T1/pcr/m/n/9 cl <- c("alnum", "alpha", "blank", "digit", "graph", "punct", "upper", "xdigit")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2139--2139 []\T1/pcr/m/n/9 X <- as.data.frame(X); row.names(X) <- sQuote(intToUtf8(x, mul tiple = TRUE))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2147--2147 []\T1/pcr/m/n/9 ## How many printable characters are there? (Around 280,000 in Unicode 13.)[] [2034] [2035] [2036] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2295--2295 []\T1/pcr/m/n/10 chooseBioCmirror(graphics = getOption("menu.graphics"), ind = NULL, [2037] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2347--2347 []\T1/pcr/m/n/10 chooseCRANmirror(graphics = getOption("menu.graphics"), ind = NULL, [2038] [2039] Underfull \hbox (badness 1117) in paragraph at lines 2473--2480 []\T1/ptm/m/n/10 If the ob-ject re-turned by []\T1/pcr/m/n/10 citation() []\T1/ ptm/m/n/10 con-tains only one ref-er-ence, the as-so-ci-ated print Underfull \hbox (badness 1400) in paragraph at lines 2473--2480 \T1/ptm/m/n/10 method shows both a text ver-sion and a Bib-TeX en-try for it. I f a pack-age has more [2040] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/10 citeNatbib(keys, bib, textual = FALSE, before = NULL, after = NULL,[] [2041] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2667--2667 [] \T1/pcr/m/n/9 comment = "R port, author of parallel support, mainta iner 1999--2022",[] [2042] Overfull \hbox (24.78088pt too wide) in paragraph at lines 2722--2722 []\T1/pcr/m/n/10 citEntry(entry, textVersion = NULL, header = NULL, footer = N ULL, ...) [2043] Underfull \hbox (badness 1082) in paragraph at lines 2751--2755 [][][]\T1/pcr/m/n/10 citation[][][] []\T1/ptm/m/n/10 for more in-for-ma-tion ab out cit-ing R and R pack-ages and `\T1/pcr/m/n/10 CITATION\T1/ptm/m/n/10 ' file s; pdfTeX warning (ext4): destination with the same identifier (name{Rfn.clipboard }) has been already used, duplicate ignored \relax l.2756 ... the Clipboard in MS Windows}{clipboard} [2044] [2045] Underfull \hbox (badness 10000) in paragraph at lines 2880--2882 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2046] [2047] [2048] Underfull \hbox (badness 10000) in paragraph at lines 3100--3102 []\T1/ptm/m/n/10 character string, in-di-cat-ing which type of pack-ages: see [2049] [2050] [2051] [2052] Underfull \hbox (badness 1762) in paragraph at lines 3392--3395 []\T1/ptm/m/n/10 To just look in the `\T1/pcr/m/n/10 data\T1/ptm/m/n/10 ' di-re c-tory of the cur-rent work-ing di-rec-tory, set []\T1/pcr/m/n/10 package = [2053] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3480--3480 []\T1/pcr/m/n/9 try(data(package = "rpart"), silent = TRUE) # list the data se ts in the rpart package[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 3481--3481 []\T1/pcr/m/n/9 data(USArrests, "VADeaths") # load the data sets \TS1/pcr/m /n/9 '\T1/pcr/m/n/9 USArrests\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 VADeaths\TS1/pcr/m/n/9 '[] [2054] Underfull \hbox (badness 2452) in paragraph at lines 3555--3558 []\T1/ptm/m/n/10 The data en-try win-dow re-sponds to X re-sources of class []\ T1/pcr/m/n/10 R_dataentry[]\T1/ptm/m/n/10 . Re-sources [2055] [2056] [2057] [2058] [2059] [2060] [2061] Overfull \hbox (74.58035pt too wide) in paragraph at lines 3993--3993 [] \T1/pcr/m/n/9 DLL.version(file.path(R.home(), "library/stats/libs", .Platf orm$r_arch, "stats.dll"))[] [2062] Underfull \hbox (badness 4779) in paragraph at lines 4074--4079 []\T1/ptm/m/n/10 Support for method []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2063] Underfull \hbox (badness 1072) in paragraph at lines 4156--4160 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/pcr/m/n/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2064] Underfull \hbox (badness 7238) in paragraph at lines 4217--4222 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 "libcurl" []\T1/ptm/m/n/10 and []\T1/ pcr/m/n/10 "curl" []\T1/ptm/m/n/10 meth-ods, prox-ies can be set \T1/ptm/m/it/1 0 via \T1/ptm/m/n/10 the en-vi-ron- Underfull \hbox (badness 1337) in paragraph at lines 4217--4222 \T1/ptm/m/n/10 ment vari-ables []\T1/pcr/m/n/10 http_proxy []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 ftp_proxy[]\T1/ptm/m/n/10 . See [][]$\T1/pcr/m/n/10 https : / / curl . se / libcurl / c / Underfull \hbox (badness 1184) in paragraph at lines 4232--4248 \T1/ptm/m/n/10 string con-tain-ing `[]\T1/pcr/m/n/10 "Schannel"[]\T1/ptm/m/n/10 '. If it does not, for ver-i-fi-ca-tion to be on the en-vi-ron- [2065] [2066] Underfull \hbox (badness 4660) in paragraph at lines 4358--4361 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 10000) in paragraph at lines 4382--4384 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 do wnload.file[][][] []\T1/ptm/m/n/10 and [2067] [2068] [2069] Underfull \hbox (badness 1565) in paragraph at lines 4568--4572 []\T1/ptm/m/n/10 Data frame columns are co-erced on in-put to \T1/ptm/m/it/10 c har-ac-ter \T1/ptm/m/n/10 un-less nu-meric (in the sense of [2070] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4651--4651 [] \T1/pcr/m/n/10 character.only = FALSE, give.lines = FALSE, local = F ALSE,[] [2071] Underfull \hbox (badness 1910) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 is saved, then ini-tial-ized to a spec-i-fied state, the ex-am-p le is run and Underfull \hbox (badness 1655) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 the (saved) state is re-stored. []\T1/pcr/m/n/10 setRNG = TRUE [ ]\T1/ptm/m/n/10 sets the same state as Underfull \hbox (badness 2846) in paragraph at lines 4686--4693 []\T1/pcr/m/n/10 R CMD [][]check[][][] []\T1/ptm/m/n/10 does for run-ning a pac k-age's ex-am-ples. This is cur- Underfull \hbox (badness 3460) in paragraph at lines 4686--4693 \T1/ptm/m/n/10 rently equiv-a-lent to []\T1/pcr/m/n/10 setRNG = {RNGkind("defau lt", "default", Underfull \hbox (badness 1931) in paragraph at lines 4693--4700 []\T1/ptm/m/n/10 logical (or []\T1/pcr/m/n/10 "default"[]\T1/ptm/m/n/10 ) in-di -cat-ing if [][][]\T1/pcr/m/n/10 devAskNewPage[][][](ask = TRUE) [2072] [2073] [2074] Underfull \hbox (badness 5939) in paragraph at lines 4946--4948 []\T1/ptm/m/n/10 An en-try in []\T1/pcr/m/n/10 getOption("repos") []\T1/ptm/m/n /10 named `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' which is not the de-fault [2075] [2076] [2077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5089--5089 []\T1/pcr/m/n/9 # Set a breakpoint in both copies of that function, assuming o ne is in the[] [2078] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.format.1} ) has been already used, duplicate ignored \relax l.5160 ...mat Unordered and Ordered Lists}{format} [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 1622) in paragraph at lines 5684--5688 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2087] [2088] [2089] [2090] [2091] Underfull \hbox (badness 1448) in paragraph at lines 6069--6074 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2092] [2093] Overfull \hbox (96.78088pt too wide) in paragraph at lines 6218--6218 []\T1/pcr/m/n/10 ## NB: The methods for \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 data.f rame\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 and \TS1/pcr/m/n/10 '\T1/pcr/m/n/10 array\ TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 are identical to the \TS1/pcr/m/n/10 '\T1/pcr/ m/n/10 matrix\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 one[] [2094] Overfull \hbox (66.78088pt too wide) in paragraph at lines 6230--6230 []\T1/pcr/m/n/10 tail(x, n = 6L, keepnums = TRUE, addrownums, ...) # exported as tail.matrix()[] [2095] [2096] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6372--6372 [] \T1/pcr/m/n/9 ## BUT if I use "useAttrib(.)", this is *not* ok, when n i s of length 2:[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 6373--6373 [] \T1/pcr/m/n/9 ## --- because [i,j]-indexing of data frames *also* drops "other" attributes ..[] [2097] [2098] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6585--6585 [] \T1/pcr/m/n/9 ## -> nicely formatted pdf -- including math formula -- for h elp(dgamma):[] [2099] [2100] Underfull \hbox (badness 10000) in paragraph at lines 6669--6671 []\T1/ptm/m/n/10 The post-ing guide ([][]$\T1/pcr/m/n/10 https : / / www . r-[] project . org / posting-[]guide . html$[][]\T1/ptm/m/n/10 ), also Underfull \hbox (badness 1502) in paragraph at lines 6718--6724 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6718--6724 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2101] [2102] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6839--6839 []\T1/pcr/m/n/9 help.search("linear models") # In case you forgot how to fit linear models[] [2103] Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in- Underfull \hbox (badness 10000) in paragraph at lines 6904--6913 \T1/ptm/m/n/10 dex, `\T1/ptm/m/sl/10 R_DOC_DIR\T1/pcr/m/n/10 /html/packages.htm l\T1/ptm/m/n/10 ', which can be re-made by [2104] Underfull \hbox (badness 2150) in paragraph at lines 6967--6970 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See Underfull \hbox (badness 5175) in paragraph at lines 6983--6986 []\T1/pcr/m/n/10 hsearch_db() []\T1/ptm/m/n/10 builds and caches the help searc h database for sub-se-quent use by [2105] [2106] Underfull \hbox (badness 3118) in paragraph at lines 7105--7107 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2107] [2108] Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 means to use []\T1/pcr/m/n/10 c("Depends ", "Imports", "LinkingTo", Underfull \hbox (badness 10000) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "Suggests") []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pkgs []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 c("Depends", "Imports", Underfull \hbox (badness 1270) in paragraph at lines 7309--7316 \T1/pcr/m/n/10 "LinkingTo") []\T1/ptm/m/n/10 for added de-pen-den-cies: this in -stalls all the pack-ages [2109] Underfull \hbox (badness 1270) in paragraph at lines 7324--7334 \T1/ptm/m/n/10 for the `[]\T1/pcr/m/n/10 --configure-args[]\T1/ptm/m/n/10 ' fla g in the call to []\T1/pcr/m/n/10 R CMD INSTALL[]\T1/ptm/m/n/10 . If Underfull \hbox (badness 1975) in paragraph at lines 7366--7370 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be passed to []\T1/pcr/m/n/10 R Underfull \hbox (badness 4913) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 CMD INSTALL []\T1/ptm/m/n/10 for a source pack-age in-stall. E.g ., []\T1/pcr/m/n/10 c("--html", Underfull \hbox (badness 10000) in paragraph at lines 7366--7370 \T1/pcr/m/n/10 "--no-multiarch", "--no-test-load") []\T1/ptm/m/n/10 or, for ma- cOS, Underfull \hbox (badness 1424) in paragraph at lines 7375--7378 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to Underfull \hbox (badness 10000) in paragraph at lines 7388--7393 []\T1/ptm/m/n/10 further ar-gu-ments to be passed to [][][]\T1/pcr/m/n/10 downl oad.file[][][][]\T1/ptm/m/n/10 , [2110] Underfull \hbox (badness 2376) in paragraph at lines 7457--7464 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/pcr/m/n /10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7457--7464 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1087) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 Using pack-ages with []\T1/pcr/m/n/10 type = "source" []\T1/pt m/m/n/10 al-ways works pro-vided the pack-age con-tains no [2111] Underfull \hbox (badness 1314) in paragraph at lines 7536--7543 []\T1/pcr/m/n/10 install.packages []\T1/ptm/m/n/10 needs to be able to com-pute all the de-pen-den-cies of []\T1/pcr/m/n/10 pkgs []\T1/ptm/m/n/10 from [2112] Underfull \hbox (badness 10000) in paragraph at lines 7620--7625 [][][]\T1/pcr/m/n/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pac kages[][][][]\T1/ptm/m/n/10 , Overfull \hbox (25.98041pt too wide) in paragraph at lines 7642--7642 [] \T1/pcr/m/n/9 configure.args = c(RNetCDF = "--with-netcdf-include=/usr/inc lude/udunits2"))[] [2113] Overfull \hbox (48.78088pt too wide) in paragraph at lines 7660--7660 [] \T1/pcr/m/n/10 str2logical(Sys.getenv("R_PACKAGES_CAC HE_USER_DIR",[] Underfull \hbox (badness 10000) in paragraph at lines 7681--7684 [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 in-di-cat-ing if caching sh ould hap-pen in \T1/ptm/b/n/10 tools\T1/ptm/m/n/10 ' Underfull \hbox (badness 5133) in paragraph at lines 7685--7689 []\T1/ptm/m/n/10 a char-ac-ter vec-tor giv-ing the fields to ex-tract from each pack-age's Underfull \hbox (badness 1983) in paragraph at lines 7699--7702 []\T1/pcr/m/n/10 installed.packages []\T1/ptm/m/n/10 scans the `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' files of each pack-age found along [2114] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7746--7746 []\T1/pcr/m/n/9 plic <- installed.packages(.Library, priority = "high", fields = "License")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7751--7751 []\T1/pcr/m/n/9 ## Keep packages that come with R (priority="high") and all ot hers separate![] [2115] [2116] Underfull \hbox (badness 4132) in paragraph at lines 7877--7879 []\T1/ptm/m/n/10 The ac-tual link-ing com-mand is con-structed by the ver-sion of []\T1/pcr/m/n/10 libtool []\T1/ptm/m/n/10 in-stalled at [2117] [2118] [2119] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8044--8044 []\T1/pcr/m/n/9 ls.str(mode = "list") #- what are the structured objects I h ave defined?[] [2120] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8124--8124 []\T1/pcr/m/n/10 make.packages.html(lib.loc = getOption("html_lib.loc", defaul t = .libPaths()), Overfull \hbox (36.78088pt too wide) in paragraph at lines 8125--8125 [] \T1/pcr/m/n/10 temp = FALSE, verbose = TRUE, docdir = R.h ome("doc"))[] [2121] Overfull \hbox (0.78088pt too wide) in paragraph at lines 8190--8190 []\T1/pcr/m/n/10 make.socket(host = "localhost", port, fail = TRUE, server = F ALSE) [2122] Underfull \hbox (badness 10000) in paragraph at lines 8230--8232 []\T1/ptm/m/n/10 Compiling in sup-port for sock-ets was op-tional prior to \T1/ phv/m/n/10 R \T1/ptm/m/n/10 3.3.0: see [2123] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8323--8323 [] \T1/pcr/m/n/10 methods(generic.function, class, all.names = FALSE, dropPa th = FALSE)[] Overfull \hbox (132.78088pt too wide) in paragraph at lines 8325--8325 [] \T1/pcr/m/n/10 all.names = FALSE, dropPa th = FALSE, useEnv = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 8338--8340 []\T1/ptm/m/n/10 a sym-bol or char-ac-ter string nam-ing a class: only used if Underfull \hbox (badness 10000) in paragraph at lines 8356--8358 []\T1/ptm/m/n/10 typically the re-sult of []\T1/pcr/m/n/10 methods(..)[]\T1/ptm /m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2124] [2125] [2126] [2127] Underfull \hbox (badness 1859) in paragraph at lines 8589--8592 []\T1/ptm/m/n/10 logical spec-i-fy-ing that the news should be opened in the br owser (by [2128] [2129] Overfull \hbox (25.98041pt too wide) in paragraph at lines 8719--8719 []\T1/pcr/m/n/9 db4 <- news(Version == "4.0.0" & grepl("^Bug", Category) & gre pl("PR#", Text),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8725--8725 []\T1/pcr/m/n/9 ## News from a date range (\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 Matri x\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 is there in a regular R installation):[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 8733--8733 []\T1/pcr/m/n/9 ## Which categories have been in use? % R-core maybe should st andardize a bit more[] [2130] Underfull \hbox (badness 1917) in paragraph at lines 8820--8822 []\T1/pcr/m/n/10 "B"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "KiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "MiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "GiB"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "TiB"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "PiB"[]\T1/ptm/m/ n/10 , Underfull \hbox (badness 1331) in paragraph at lines 8828--8832 []\T1/ptm/m/n/10 For all stan-dards, []\T1/pcr/m/n/10 units = "auto" []\T1/ptm/ m/n/10 is also al-lowed. If []\T1/pcr/m/n/10 standard = [2131] [2132] [2133] Underfull \hbox (badness 3690) in paragraph at lines 8992--8995 []\T1/ptm/m/n/10 optionally a char-ac-ter string spec-i-fy-ing an [][]En-cod-in g[][][] for the pack-age [2134] Overfull \hbox (66.78088pt too wide) in paragraph at lines 9093--9093 [] \T1/pcr/m/n/10 date.fields = c("Date", "Packaged", "Date/Publica tion", "Built"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 9094--9094 [] \T1/pcr/m/n/10 tryFormats = c("%Y-%m-%d", "%Y/%m/%d", "%D", "%m/ %d/%y"),[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 9095--9095 [] \T1/pcr/m/n/10 desc = packageDescription(pkg, lib.loc=lib.loc, f ields=date.fields))[] [2135] Underfull \hbox (badness 10000) in paragraph at lines 9123--9125 []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 asDateBuilt()[]\T1/ptm/m/n/10 , a [][][]\ T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string as from Underfull \hbox (badness 10000) in paragraph at lines 9137--9139 []\T1/pcr/m/n/10 packageVersion() []\T1/ptm/m/n/10 is a con-ve-nience short-cut , al-low-ing things like []\T1/pcr/m/n/10 if Underfull \hbox (badness 1259) in paragraph at lines 9145--9150 []\T1/ptm/m/n/10 If a `\T1/pcr/m/n/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2136] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9189--9189 [] \T1/pcr/m/n/9 identical(pu, packageDate("stats"))) # as "utils" an d "stats" are[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9190--9190 [] \T1/pcr/m/n/9 # both \TS1/pcr/m/n/9 '\T1/ pcr/m/n/9 base R\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 and "Built" at same time[] [2137] [2138] Underfull \hbox (badness 10000) in paragraph at lines 9316--9321 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("ok", "upgrade", Underfull \hbox (badness 10000) in paragraph at lines 9323--9326 []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 "Status"[]\T1/ptm/m/n/10 , a fac-tor wit h lev-els []\T1/pcr/m/n/10 c("installed", "not [2139] [2140] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9440--9440 [] \T1/pcr/m/n/10 include = c("given", "family", "email", "role", "comme nt"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 9441--9441 [] \T1/pcr/m/n/10 braces = list(given = "", family = "", email = c("<", ">"),[] [2141] [2142] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9628--9628 [] \T1/pcr/m/n/9 "S original, "),[] [2143] [2144] [2145] Underfull \hbox (badness 7203) in paragraph at lines 9800--9802 []\T1/ptm/m/n/10 See [][]\T1/ptm/m/sl/10 Writ-ing R Ex-ten-sions[][] \T1/ptm/m/ n/10 and [][]\T1/ptm/m/sl/10 R for Win-dows FAQ[][] \T1/ptm/m/n/10 for more dis -cus-sion of the [2146] [2147] [2148] [2149] Underfull \hbox (badness 2600) in paragraph at lines 10024--10027 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the name of the help topic; de-faults to [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10648--10648 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", " no.loss"),[] [2158] [2159] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10809--10809 []\T1/pcr/m/n/9 dd <- read.DIF(file.path(udir, "exDIF.dif"), header = TRUE, tr anspose = TRUE)[] [2160] [2161] [2162] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10989--10989 []\T1/pcr/m/n/9 read.fwf(ff, widths = list(c(1,0, 2,3), c(2,2,2))) #> 1 NA 23 456 98 76 54[] [2163] Overfull \hbox (42.78088pt too wide) in paragraph at lines 11075--11075 [] \T1/pcr/m/n/10 dec = ".", numerals = c("allow.loss", "warn.loss", "no.loss"),[] [2164] Overfull \hbox (72.78088pt too wide) in paragraph at lines 11076--11076 [] \T1/pcr/m/n/10 row.names, col.names, as.is = !stringsAsFactors, t ryLogical = TRUE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 11078--11078 [] \T1/pcr/m/n/10 skip = 0, check.names = TRUE, fill = !blank.lines. skip,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 11083--11083 [] \T1/pcr/m/n/10 fileEncoding = "", encoding = "unknown", text, ski pNul = FALSE)[] [2165] Underfull \hbox (badness 2027) in paragraph at lines 11155--11158 []\T1/ptm/m/n/10 Using []\T1/pcr/m/n/10 row.names = NULL []\T1/ptm/m/n/10 force s row num-ber-ing. Miss-ing or []\T1/pcr/m/n/10 NULL Underfull \hbox (badness 2435) in paragraph at lines 11178--11182 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 logical[][][] []\T1/ptm/m/n/10 de-ter-m in-ing if columns con-sist-ing en-tirely of []\T1/pcr/m/n/10 "F"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1824) in paragraph at lines 11178--11182 []\T1/pcr/m/n/10 "FALSE"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "TRUE" []\T1/pt m/m/n/10 should be con-verted to [][][]\T1/pcr/m/n/10 logical[][][][]\T1/ptm/m/ n/10 ; passed to [2166] [2167] [2168] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11443--11443 []\T1/pcr/m/n/10 readRegistry(key, hive = c("HLM", "HCR", "HCU", "HU", "HCC", "HPD"), Overfull \hbox (6.78088pt too wide) in paragraph at lines 11444--11444 [] \T1/pcr/m/n/10 maxdepth = 1, view = c("default", "32-bit", "64- bit"))[] [2169] Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 \T1/ptm/m/n/10 for []\T1/pcr/m/n/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/ pcr/m/n/10 HKEY_CLASSES_ROOT[]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11451--11456 []\T1/pcr/m/n/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_USER S[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 HKEY_CURRENT_CONFIG [2170] [2171] [2172] Overfull \hbox (18.78088pt too wide) in paragraph at lines 11685--11685 [] \T1/pcr/m/n/10 ipar <- list(mean = c(0, 1), vcov = c bind(c(1, 1), c (1, 0))) [2173] [2174] [2175] [2176] Underfull \hbox (badness 2088) in paragraph at lines 11951--11954 \T1/ptm/m/n/10 Ac-cessed 2024-02-22, [][]$\T1/pcr/m/n/10 https : / / en . wikip edia . org / w / index . php ? title = Roman _ [2177] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11968--11968 []\T1/pcr/m/n/9 as.roman(c(NA, 1:3, "", strrep("I", 1:7))) # + NA with a warni ng for the last.[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11973--11973 []\T1/pcr/m/n/9 ## simple consistency checks -- arithmetic when result is in {1,2,..,4999} :[] [2178] [2179] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12127--12127 []\T1/pcr/m/n/10 4. | \-base:::tryCatchOne(expr, names, parentenv, handler s[[1L]])[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12128--12128 []\T1/pcr/m/n/10 5. | \-base:::doTryCatch(return(expr), name, parentenv, handler)[] [2180] [2181] Overfull \hbox (0.78088pt too wide) in paragraph at lines 12262--12262 []\T1/pcr/m/n/10 Rprofmem(filename = "Rprofmem.out", append = FALSE, threshold = 0) [2182] [2183] Underfull \hbox (badness 1917) in paragraph at lines 12394--12397 []\T1/ptm/m/n/10 If `[]\T1/pcr/m/n/10 --default-packages[]\T1/ptm/m/n/10 ' is n ot used, then []\T1/pcr/m/n/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron-me nt vari- Underfull \hbox (badness 4328) in paragraph at lines 12394--12397 \T1/ptm/m/n/10 able []\T1/pcr/m/n/10 R_SCRIPT_DEFAULT_PACKAGES[]\T1/ptm/m/n/10 . If this is set, then it takes prece-dence over Overfull \hbox (106.98032pt too wide) in paragraph at lines 12417--12417 []\T1/pcr/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 sessionInfo()\TS1/pcr/m/n/9 '[] [2184] Overfull \hbox (54.78088pt too wide) in paragraph at lines 12510--12510 [] \T1/pcr/m/n/10 restrict = c("functions", "descriptions", "news", "Rfunctions",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 12511--12511 [] \T1/pcr/m/n/10 "Rmanuals", "READMEs", "views", "vig nettes"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12513--12513 [] \T1/pcr/m/n/10 sortby = c("score", "date:late", "date:early", "s ubject",[] [2185] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12514--12514 [] \T1/pcr/m/n/10 "subject:descending", "size", "size:de scending"),[] Underfull \hbox (badness 6725) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 score[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 date: late []\T1/ptm/m/n/10 for sort-ing by date with lat-est re-sults first, Underfull \hbox (badness 2662) in paragraph at lines 12537--12545 \T1/ptm/m/n/10 der, []\T1/pcr/m/n/10 subject:descending []\T1/ptm/m/n/10 for re -verse al-pha-bet-i-cal or-der, []\T1/pcr/m/n/10 size []\T1/ptm/m/n/10 or [2186] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12582--12582 []\T1/pcr/m/n/9 fullquery <- RSiteSearch("lattice", restrict = c("vignettes"," Rfunctions"))[] Underfull \hbox (badness 1377) in paragraph at lines 12638--12641 []\T1/ptm/m/n/10 Character string spec-i-fy-ing whether emacs style ([]\T1/pcr/ m/n/10 "etags"[]\T1/ptm/m/n/10 ) or vi style [2187] Underfull \hbox (badness 3646) in paragraph at lines 12673--12675 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/p tm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / www . gnu . org / software / Overfull \hbox (0.78088pt too wide) in paragraph at lines 12714--12714 [] \T1/pcr/m/n/10 split = FALSE, quiet = FALSE, drop.evalFALSE = F ALSE,[] [2188] [2189] [2190] [2191] [2192] Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 RweaveLatexFinish []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 Rweave LatexOptions []\T1/ptm/m/n/10 are func-tions for the []\T1/pcr/m/n/10 setup[]\T 1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13042--13050 []\T1/pcr/m/n/10 writedoc[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 finish []\T1/ptm/m /n/10 and []\T1/pcr/m/n/10 checkopts []\T1/ptm/m/n/10 el-e-ments of the driver, re-spec-tively. [2193] Underfull \hbox (badness 10000) in paragraph at lines 13063--13067 []\T1/ptm/m/n/10 The de-fault for []\T1/pcr/m/n/10 stylepath []\T1/ptm/m/n/10 i s now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 13096--13102 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a Underfull \hbox (badness 2027) in paragraph at lines 13111--13117 []\T1/ptm/m/n/10 The use of fancy quotes (see [][][]\T1/pcr/m/n/10 sQuote[][][] []\T1/ptm/m/n/10 ) can cause prob-lems when set-ting \T1/phv/m/n/10 R \T1/ptm/m /n/10 out-put in [2194] Underfull \hbox (badness 10000) in paragraph at lines 13168--13171 []\T1/ptm/m/n/10 logical ([]\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 ). An al-ter-n a-tive way to set both []\T1/pcr/m/n/10 ignore.on.weave []\T1/ptm/m/n/10 and [2195] Overfull \hbox (6.78088pt too wide) in paragraph at lines 13280--13280 [] \T1/pcr/m/n/10 units = "in", type = "quartz", bg = "transpa rent")[] Underfull \hbox (badness 1009) in paragraph at lines 13298--13310 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If [2196] Underfull \hbox (badness 2600) in paragraph at lines 13368--13370 []\T1/ptm/m/n/10 The file `\T1/pcr/m/n/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ures the R GUI ([]\T1/pcr/m/n/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-dows and [2197] Underfull \hbox (badness 1043) in paragraph at lines 13411--13416 []\T1/ptm/m/n/10 At the time of writ-ing `\T1/pcr/m/n/10 Rdevga\T1/ptm/m/n/10 ' con-fig-ured the map-ping of font num-bers to fonts, and [2198] [2199] [2200] [2201] [2202] Underfull \hbox (badness 10000) in paragraph at lines 13730--13733 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g Underfull \hbox (badness 10000) in paragraph at lines 13733--13736 []\T1/ptm/m/n/10 (not al-ways present): a named list of the re-sults of call-in g [2203] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13779--13779 []\T1/pcr/m/n/9 toLatex(sI, locale = FALSE) # shortest; possibly desirable at end of report[] Underfull \hbox (badness 2158) in paragraph at lines 13841--13844 []\T1/ptm/m/n/10 Repository `[]\T1/pcr/m/n/10 CRAN[]\T1/ptm/m/n/10 ' is treated spe-cially: the value is taken from the cur-rent set-ting of [2204] Overfull \hbox (0.78088pt too wide) in paragraph at lines 13894--13894 []\T1/pcr/m/n/10 setWindowTitle(suffix, title = paste(getIdentification(), suf fix)) [2205] [2206] Underfull \hbox (badness 2302) in paragraph at lines 14050--14052 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2207] [2208] Underfull \hbox (badness 3333) in paragraph at lines 14158--14160 []\T1/pcr/m/n/10 getSrcFilename []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 getSrcDir ectory []\T1/ptm/m/n/10 re-turn char-ac-ter vec-tors hold-ing the file- [2209] [2210] [2211] Overfull \hbox (42.78088pt too wide) in paragraph at lines 14325--14325 [] \T1/pcr/m/n/10 format(x, trim = TRUE, drop0trailing = TRUE, ...))[] Underfull \hbox (badness 5970) in paragraph at lines 14358--14361 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive Underfull \hbox (badness 2600) in paragraph at lines 14358--14361 [][][]\T1/pcr/m/n/10 options[][][]("width")[]\T1/ptm/m/n/10 ; note that this ha s only a weak ef-fect, un-less Underfull \hbox (badness 1052) in paragraph at lines 14369--14378 []\T1/ptm/m/n/10 (see [][][]\T1/pcr/m/n/10 options[][][][]\T1/ptm/m/n/10 ) whic h de-faults to []\T1/pcr/m/n/10 "no" []\T1/ptm/m/n/10 for back com-pat-i-bil-it y rea-sons; [2212] Underfull \hbox (badness 1442) in paragraph at lines 14385--14389 []\T1/ptm/m/n/10 numeric or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 as by de-fau lt, de-ter-min-ing the []\T1/pcr/m/n/10 nlines []\T1/ptm/m/n/10 ar-gu-ment to Overfull \hbox (36.7804pt too wide) in paragraph at lines 14431--14431 []\T1/pcr/m/n/9 str(.Machine, digits.d = 20) # extra digits for identification of binary numbers[] [2213] Overfull \hbox (15.18042pt too wide) in paragraph at lines 14458--14458 []\T1/pcr/m/n/9 ## Truncation behavior (<-> correct width measurement) for "lo ng" non-ASCII:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14465--14465 []\T1/pcr/m/n/9 ## nchar.max: 1st line needs an increase of 2 in order to se e 1 (in UTF-8!):[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 14467--14467 []\T1/pcr/m/n/9 invisible(lapply(60:66, function(N) str( ch , nchar.max = N))) # "1 is 1" here[] [2214] [2215] [2216] Underfull \hbox (badness 10000) in paragraph at lines 14632--14634 []\T1/ptm/m/n/10 Options other than []\T1/pcr/m/n/10 memory = "none" []\T1/ptm/ m/n/10 ap-ply only to files pro-duced by [2217] Underfull \hbox (badness 10000) in paragraph at lines 14740--14743 []\T1/ptm/m/n/10 further ar-gu-ments passed to the driver's []\T1/pcr/m/n/10 se tup []\T1/ptm/m/n/10 func-tion. See Underfull \hbox (badness 1389) in paragraph at lines 14740--14743 [][][]\T1/pcr/m/n/10 RweaveLatexSetup[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/ m/n/10 RtangleSetup[][][][]\T1/ptm/m/n/10 , re-spec-tively, for the ar-gu- [2218] Underfull \hbox (badness 6300) in paragraph at lines 14793--14800 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fau lt) then the avail-able syn-tax ob-jects are con-sulted in Underfull \hbox (badness 6252) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 turn, and se-lected if their []\T1/pcr/m/n/10 extension []\T1/pt m/m/n/10 com-po-nent matches (as a reg-exp) the file Underfull \hbox (badness 4556) in paragraph at lines 14793--14800 \T1/ptm/m/n/10 name. Ob-jects []\T1/pcr/m/n/10 SweaveSyntaxNoweb []\T1/ptm/m/n/ 10 (with []\T1/pcr/m/n/10 extension = "[.][rsRS]nw$"[]\T1/ptm/m/n/10 ) and [2219] [2220] [2221] [2222] Underfull \hbox (badness 2020) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 si-bly use-ful val-ues in-clude `[]\T1/pcr/m/n/10 -h[]\T1/ptm/m/ n/10 ' (fol-low sym-bolic links, also `[]\T1/pcr/m/n/10 -L[]\T1/ptm/m/n/10 ' on some plat-forms), Underfull \hbox (badness 1194) in paragraph at lines 15033--15043 \T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 --acls[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 -- exclude-backups[]\T1/ptm/m/n/10 ', `[]\T1/pcr/m/n/10 --exclude-vcs[]\T1/ptm/m/n /10 ' (and sim-i-lar) and on Win-dows Underfull \hbox (badness 1622) in paragraph at lines 15044--15051 []\T1/ptm/m/n/10 A con-ve-nient and ro-bust way to set op-tions for GNU []\T1/p cr/m/n/10 tar []\T1/ptm/m/n/10 is via en-vi-ron-ment vari-able [2223] [2224] Underfull \hbox (badness 5022) in paragraph at lines 15205--15209 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 is set t o the com-mand []\T1/pcr/m/n/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 [][][]$\T1/pcr/m/n/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ f ormat)$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 https : / / pubs . Underfull \hbox (badness 10000) in paragraph at lines 15212--15215 \T1/pcr/m/n/10 opengroup . org / onlinepubs / 9699919799 / utilities / pax . ht ml # tag _ 20 _ 92 _ [2225] [2226] [2227] [2228] [2229] [2230] [2231] [2232] [2233] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15853--15853 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 15859--15859 [] \T1/pcr/m/n/10 instPkgs = installed.packages(lib.loc = lib.loc, ...),[] [2234] Underfull \hbox (badness 4660) in paragraph at lines 15896--15900 \T1/ptm/m/n/10 able at the repos-i-to-ries, or []\T1/pcr/m/n/10 NULL []\T1/ptm/ m/n/10 which makes an in-ter-nal call to Underfull \hbox (badness 1694) in paragraph at lines 15910--15914 []\T1/ptm/m/n/10 by de-fault all in-stalled pack-ages, [][][]\T1/pcr/m/n/10 ins talled.packages[][][](lib.loc = Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/ptm/m/n/10 Arguments such as []\T1/pcr/m/n/10 destdir []\T1/ptm/m/n/10 an d []\T1/pcr/m/n/10 dependencies []\T1/ptm/m/n/10 to be Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 \T1/ptm/m/n/10 passed to [][][]\T1/pcr/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 and []\T1/pcr/m/n/10 ignore_repo_cache[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15916--15921 []\T1/pcr/m/n/10 max_repo_cache_age []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 noCac he []\T1/ptm/m/n/10 to [][][]\T1/pcr/m/n/10 available.packages[][][] Underfull \hbox (badness 1052) in paragraph at lines 15922--15924 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. See Underfull \hbox (badness 10000) in paragraph at lines 15957--15962 []\T1/pcr/m/n/10 available = NULL []\T1/ptm/m/n/10 make a call to []\T1/pcr/m/n /10 available.packages(contriburl = Underfull \hbox (badness 1226) in paragraph at lines 15957--15962 \T1/pcr/m/n/10 contriburl, method = method) []\T1/ptm/m/n/10 and hence by de-fa ult fil-ters on \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sion, OS type [2235] Underfull \hbox (badness 10000) in paragraph at lines 15978--15983 []\T1/ptm/m/n/10 Take care when us-ing []\T1/pcr/m/n/10 dependencies []\T1/ptm/ m/n/10 (passed to [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 ) with Underfull \hbox (badness 10000) in paragraph at lines 15986--15989 [][][]\T1/pcr/m/n/10 install.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 download.pa ckages[][][][]\T1/ptm/m/n/10 , [2236] Overfull \hbox (15.18042pt too wide) in paragraph at lines 16062--16062 []\T1/pcr/m/n/9 ## Not run: url.show("https://www.stats.ox.ac.uk/pub/datasets/ csb/ch3a.txt") [2237] [2238] [2239] Underfull \hbox (badness 4832) in paragraph at lines 16263--16266 [][][]\T1/pcr/m/n/10 browseVignettes[][][] []\T1/ptm/m/n/10 for an HTML-based v i-gnette browser; [][][]\T1/pcr/m/n/10 RShowDoc[][][]("\T1/ptm/m/sl/10 basename \T1/pcr/m/n/10 ", [2240] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16288--16288 []\T1/pcr/m/n/9 ## OK, but warns as this topic is ambiguous: both {grid} and { lattice} have it.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 16290--16290 []\T1/pcr/m/n/9 ## (also accelerates vignette retrieval, esp. with many ins talled packages):[] [2241] Overfull \hbox (4.38043pt too wide) in paragraph at lines 16347--16347 [] \T1/pcr/m/n/9 lm(weight ~ (Time + I(Time^2)) * Diet, d ata = DAT)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 16369--16369 [] \T1/pcr/m/n/9 nls(weight ~ SSlogis(Time, Asym, xmid, scal), data = DD)))[] [2242] [2243] Underfull \hbox (badness 1297) in paragraph at lines 16501--16503 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the ac-tion when that menu i s se-lected, or [2244] Underfull \hbox (badness 4036) in paragraph at lines 16548--16550 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 winMenuDel []\T1/ptm/m/n/10 func-tion wil l delete a menu and all of its items and sub-menus. [2245] [2246] Overfull \hbox (0.78088pt too wide) in paragraph at lines 16668--16668 []\T1/pcr/m/n/10 write.table(x, file = "", append = FALSE, quote = TRUE, sep = " ", [2247] Underfull \hbox (badness 1715) in paragraph at lines 16720--16723 []\T1/ptm/m/n/10 arguments to []\T1/pcr/m/n/10 write.table[]\T1/ptm/m/n/10 : [] \T1/pcr/m/n/10 append[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 col.names[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 sep[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dec []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 16765--16767 []\T1/ptm/m/n/10 To write a Unix-style file on Win-dows, use a bi-nary con-nec- tion e.g. []\T1/pcr/m/n/10 file = [2248] [2249] [2250]) [2251] [2252] (./KernSmooth-pkg.tex Chapter 15. [2253] Overfull \hbox (24.78088pt too wide) in paragraph at lines 124--124 []\T1/pcr/m/n/10 bkde2D(x, bandwidth, gridsize = c(51L, 51L), range.x, truncat e = TRUE) [2254] [2255] [2256] [2257] [2258] Overfull \hbox (18.78088pt too wide) in paragraph at lines 523--523 []\T1/pcr/m/n/10 dpill(x, y, blockmax = 5, divisor = 20, trim = 0.01, proptrun = 0.05, [2259] [2260] [2261] [2262]) (./MASS-pkg.tex Chapter 16. [2263] [2264] [2265] [2266] [2267] [2268] [2269] [2270] [2271] [2272] [2273] Overfull \hbox (20.58041pt too wide) in paragraph at lines 774--774 []\T1/pcr/m/n/9 dreg <- cbind(sin = sin(2*pi*beav2$hours/24), cos = cos(2*pi*b eav2$hours/24))[] [2274] [2275] [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.g lm}) has been already used, duplicate ignored \relax l.1477 ...{confint.glm}{confint-MASS}{confint.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.confint.n ls}) has been already used, duplicate ignored \relax l.1478 ...{confint.nls}{confint-MASS}{confint.nls} [2284] [2285] [2286] [2287] [2288] [2289] [2290] [2291] [2292] [2293] [2294] [2295] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2328--2328 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2332--2332 []\T1/pcr/m/n/10 dropterm(object, scope, scale = 0, test = c("none", "Chisq", "F"),[] [2296] [2297] [2298] [2299] Underfull \hbox (badness 6559) in paragraph at lines 2616--2619 []\T1/ptm/m/n/10 further ar-gu-ments for []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 and graph-i-cal pa-ram-e-ters. Note that [2300] [2301] [2302] Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "gamma"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "geometric"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "log-normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lo gnormal"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 2790--2795 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "negative binomi al"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "normal"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n /10 "Poisson"[]\T1/ptm/m/n/10 , [2303] [2304] Underfull \hbox (badness 4686) in paragraph at lines 2962--2964 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2305] [2306] [2307] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3162--3162 [] \T1/pcr/m/n/10 eps.max = .Machine$double.eps^0.25, verbose = FAL SE, ...)[] [2308] [2309] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3292--3292 []\T1/pcr/m/n/9 survreg(Surv(time, cens) ~ factor(pair) + treat, gehan, dist = "exponential")[] [2310] [2311] [2312] [2313] [2314] [2315] [2316] [2317] [2318] [2319] [2320] Underfull \hbox (badness 1845) in paragraph at lines 4091--4093 []\T1/ptm/m/n/10 The va-ri-ety of bar-ley ([]\T1/pcr/m/n/10 "manchuria"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "svansota"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "velv et"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "trebi" []\T1/ptm/m/n/10 and [2321] [2322] [2323] [2324] [2325] [2326] [2327] Overfull \hbox (0.78088pt too wide) in paragraph at lines 4585--4585 [] \T1/pcr/m/n/10 col = 5, xlab = deparse(substitute(data)), bty = "n", ...)[] [2328] [2329] [2330] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4807--4807 []\T1/pcr/m/n/10 lm.ridge(formula, data, subset, na.action, lambda = 0, model = FALSE, [2331] [2332] [2333] [2334] [2335] [2336] [2337] [2338] [2339] [2340] [2341] [2342] [2343] [2344] Overfull \hbox (42.78088pt too wide) in paragraph at lines 5864--5864 []\T1/pcr/m/n/10 mvrnorm(n = 1, mu, Sigma, tol = 1e-6, empirical = FALSE, EISP ACK = FALSE) [2345] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 negative.binomial(theta = stop("\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 theta\TS1/pcr/m/n/10 ' \T1/pcr/m/n/10 must be specified"), link = "log") [2346] [2347] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk}) has been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.npk.1}) h as been already used, duplicate ignored \relax l.6085 ...sical N, P, K Factorial Experiment}{npk} [2348] [2349] [2350] [2351] [2352] [2353] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6504--6504 [] \T1/pcr/m/n/9 start = list(fixed=c(L75=c(48.7, -0.03), lsc=0.24)), verb ose = TRUE)))[] [2354] Overfull \hbox (18.78088pt too wide) in paragraph at lines 6592--6592 [] \T1/pcr/m/n/10 dimen, abbrev = FALSE, ..., cex=0.7, type = c("std", "tr ellis"))[] [2355] [2356] [2357] [2358] [2359] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6979--6979 [] \T1/pcr/m/n/10 method = c("logistic", "probit", "loglog", "cloglog", "c auchit"))[] [2360] Underfull \hbox (badness 3138) in paragraph at lines 7057--7063 []\T1/ptm/m/n/10 The log-log and com-ple-men-tary log-log links are the in-crea s-ing func-tions $\OML/cmm/m/it/10 F[]\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 p\OT1/c mr/m/n/10 ) = [2361] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7127--7127 []\T1/pcr/m/n/9 house.plr <- polr(Sat ~ Infl + Type + Cont, weights = Freq, da ta = housing)[] [2362] [2363] Underfull \hbox (badness 1389) in paragraph at lines 7236--7239 []\T1/ptm/m/n/10 the di-men-sion of the space to be used. If this is less than []\T1/pcr/m/n/10 min(p, [2364] [2365] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7366--7366 []\T1/pcr/m/n/9 fm <- lqs(stack.loss ~ ., data = stackloss, method = "S", nsam p = "exact")[] [2366] Overfull \hbox (24.78088pt too wide) in paragraph at lines 7431--7431 [] \T1/pcr/m/n/10 method = c("plug-in", "predictive", "debiased", "looC V"), ...)[] [2367] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.profile.g lm.1}) has been already used, duplicate ignored \relax l.7513 ... for Profiling glm Objects}{profile.glm} [2368] [2369] [2370] [2371] Underfull \hbox (badness 4686) in paragraph at lines 7808--7810 []\T1/ptm/m/n/10 An early ter-mi-na-tion cri-te-rion. If any par-tial de-nom-i- na-tor ex-ceeds [2372] [2373] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7927--7927 [] \T1/pcr/m/n/10 maxit = 20, acc = 1e-4, test.vec = "resid", lqs.control = NULL)[] Underfull \hbox (badness 1590) in paragraph at lines 7951--7955 []\T1/ptm/m/n/10 A func-tion to spec-ify the ac-tion to be taken if []\T1/pcr/m /n/10 NA[]\T1/ptm/m/n/10 s are found. The [2374] [2375] [2376] [2377] [2378] [2379] [2380] [2381] [2382] [2383] [2384] [2385] [2386] [2387] [2388] [2389] [2390] [2391] [2392] [2393] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9331--9331 []\T1/pcr/m/n/10 summary(object, method = c("XtX", "XtWX"), correlation = FALS E, ...)[] [2394] Underfull \hbox (badness 2035) in paragraph at lines 9443--9445 []\T1/ptm/m/n/10 ``Fold your arms! Which is on top'' (Fac-tor, with lev-els []\ T1/pcr/m/n/10 "R on L"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "L on R"[]\T1/ptm/m/n /10 , Underfull \hbox (badness 1158) in paragraph at lines 9458--9461 []\T1/ptm/m/n/10 how much the stu-dent smokes. (Fac-tor, lev-els []\T1/pcr/m/n/ 10 "Heavy"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Regul" []\T1/ptm/m/n/10 (reg-u-l arly), [2395] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9540--9540 []\T1/pcr/m/n/10 theta.md(y, mu, dfr, weights, limit = 20, eps = .Machine$doub le.eps^0.25) Overfull \hbox (30.78088pt too wide) in paragraph at lines 9542--9542 []\T1/pcr/m/n/10 theta.ml(y, mu, n, weights, limit = 10, eps = .Machine$double .eps^0.25,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 9545--9545 []\T1/pcr/m/n/10 theta.mm(y, mu, dfr, weights, limit = 10, eps = .Machine$doub le.eps^0.25)[] [2396] [2397] [2398] [2399] [2400] Underfull \hbox (badness 2951) in paragraph at lines 9905--9907 []\T1/ptm/m/n/10 The orig-i-nal data are avail-able at [][]$\T1/pcr/m/n/10 http s : / / lib . stat . cmu . edu / datasets / 1993 . [2401] [2402] [2403] [2404] [2405] [2406] [2407] [2408]) (./Matrix-pkg.tex Chapter 17. Underfull \hbox (badness 10000) in paragraph at lines 35--38 []\T1/ptm/m/n/10 Note that the cur-rent im-ple-men-ta-tion de-tails are sub-jec t to change, and if you Underfull \hbox (badness 10000) in paragraph at lines 35--38 \T1/ptm/m/n/10 con-sider work-ing with these classes, please con-tact the pack- age main-tain-ers [2409] Underfull \hbox (badness 1769) in paragraph at lines 89--92 []\T1/ptm/m/n/10 This is cur-rently ex-per-i-men-tal and not yet used for our o wn code. Please con-tact us [2410] Underfull \hbox (badness 2229) in paragraph at lines 153--156 []\T1/ptm/m/n/10 in gen-eral an ar-bi-trary num-ber of \T1/phv/m/n/10 R \T1/ptm /m/n/10 ob-jects; here, when the first is Underfull \hbox (badness 1147) in paragraph at lines 153--156 \T1/ptm/m/n/10 an []\T1/pcr/m/n/10 "[][]abIndex[][][]" []\T1/ptm/m/n/10 vec-tor , these ar-gu-ments will be con-cate-nated to a new pdfTeX warning (ext4): destination with the same identifier (name{Rfn.all.equal }) has been already used, duplicate ignored \relax l.182 ...{all.equal}{all.equal-methods}{all.equal} Underfull \hbox (badness 10000) in paragraph at lines 209--212 []\T1/ptm/m/n/10 these three meth-ods are sim-ply us-ing Underfull \hbox (badness 10000) in paragraph at lines 215--217 []\T1/ptm/m/n/10 There are more meth-ods, no-tably also for []\T1/pcr/m/n/10 "[ ][]sparseVector[][][]"[]\T1/ptm/m/n/10 's, see [2411] Underfull \hbox (badness 3098) in paragraph at lines 264--266 []\T1/ptm/m/n/10 optional ar-gu-ments passed to the de-fault method for generic func-tion [2412] [2413] Overfull \hbox (15.18042pt too wide) in paragraph at lines 452--452 [] \T1/pcr/m/n/9 band(sm5, -1, 1)# "dsyMatrix": symmetric band preserves sym metry property[] [2414] Underfull \hbox (badness 5119) in paragraph at lines 492--496 []\T1/ptm/m/n/10 logical; if true the re-sult will be sym-met-ric (in-her-it-in g from class Underfull \hbox (badness 1668) in paragraph at lines 496--501 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Overfull \hbox (4.38043pt too wide) in paragraph at lines 527--527 []\T1/pcr/m/n/9 s1 <- bandSparse(13, k = -c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 529--529 []\T1/pcr/m/n/9 s2 <- bandSparse(13, k = c(0:2, 6), diag = c(diags, diags[2]) , symm=TRUE)[] [2415] Overfull \hbox (36.7804pt too wide) in paragraph at lines 538--538 []\T1/pcr/m/n/9 lLis <- lapply(list(rpois(20, 2), rpois(20, 1), rpois(20, 3))[ c(1:3, 2:3, 3:2)],[] [2416] Overfull \hbox (52.98038pt too wide) in paragraph at lines 654--654 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Fast version of Matrix :: .bd iag() -- for the case of *many* (k x k) matrices:[] [2417] Overfull \hbox (96.18033pt too wide) in paragraph at lines 655--655 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @param lmat list(, , ....., ) where each mat_j is a k x k \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 matrix\TS1/pcr/m/n/9 '[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 656--656 []\T1/pcr/m/n/9 ##\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 @return a sparse (N*k x N*k) matrix of class \code{"\linkS4class{dgCMatrix}"}.[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 669--669 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 i :\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 maybe there\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s a faster way (w/o matri x indexing), but elegant?[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 670--670 [] \T1/pcr/m/n/9 i = as.vector(matrix(0L:(M-1L), nrow=k)[, rep(seq_len( N), each=k)]),[] [2418] Overfull \hbox (9.78043pt too wide) in paragraph at lines 837--837 []\T1/pcr/m/n/9 L. <- L; L.[1:2,1] <- TRUE; L.@x[1:2] <- FALSE; L. # has "zero s" to drop0()[] [2419] Underfull \hbox (badness 1635) in paragraph at lines 919--924 []\T1/pcr/m/n/10 new("pBunchKaufman", ...)[]\T1/ptm/m/n/10 , but they are more typ-i-cally ob-tained as the value of Underfull \hbox (badness 10000) in paragraph at lines 929--932 []\T1/pcr/m/n/10 signature(from = "BunchKaufman", to = "dtrMatrix")[]\T1/ptm/m/ n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 932--935 []\T1/pcr/m/n/10 signature(from = "pBunchKaufman", to = "dtpMatrix")[]\T1/ptm/m /n/10 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 935--938 []\T1/pcr/m/n/10 signature(from = "p?BunchKaufman", logarithm = [2420] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1008--1008 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2421] Underfull \hbox (badness 10000) in paragraph at lines 1081--1086 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class [2422] Overfull \hbox (3.02814pt too wide) in paragraph at lines 1137--1137 []\T1/pcr/m/n/9 stopifnot(all.equal(as(A, "matrix"), as(Reduce(\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 %*%\TS1/cmtt/m/n/9 `\T1/pcr/m/n/9 , e.bk.A), "matrix")))[] [2423] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1185 ... on cbind2/rbind2}{cbind2.Rdash.methods} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.cbind2}) has been already used, duplicate ignored \relax l.1186 \aliasA{cbind2}{cbind2-methods}{cbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2}) has been already used, duplicate ignored \relax l.1195 \aliasA{rbind2}{cbind2-methods}{rbind2} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rbind2.Rd ash.methods}) has been already used, duplicate ignored \relax l.1204 ...s}{cbind2-methods}{rbind2.Rdash.methods} [2424] Underfull \hbox (badness 10000) in paragraph at lines 1267--1272 []\T1/ptm/m/n/10 Our class def-i-ni-tion help pages men-tion-ing []\T1/pcr/m/n/ 10 cbind2() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 rbind2() []\T1/ptm/m/n/10 met h-ods: Underfull \hbox (badness 10000) in paragraph at lines 1322--1329 []\T1/ptm/m/n/10 The im-ple-men-ta-tion of class []\T1/pcr/m/n/10 CHMfactor []\ T1/ptm/m/n/10 is based on CHOLMOD's C-level [2425] [2426] Underfull \hbox (badness 5008) in paragraph at lines 1484--1499 []\T1/pcr/m/n/10 signature(from = "CHMfactor", logarithm = "logical")[]\T1/ptm/ m/n/10 : be- [2427] Underfull \hbox (badness 10000) in paragraph at lines 1534--1536 []\T1/pcr/m/n/10 signature(update = ., C = ., object = "CHMfactor")[]\T1/ptm/m/ n/10 : see Underfull \hbox (badness 1917) in paragraph at lines 1542--1546 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1542--1546 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2428] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1592--1592 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1600--1600 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1609--1609 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(e.ch.A, L1 %*% D %*% L1.))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1610--1610 [] \T1/pcr/m/n/9 ae2(A[ch.A@perm + 1L, ch.A@perm + 1L], with(E.ch.A, L %*% L. ))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1620--1620 []\T1/pcr/m/n/9 u2 <- update(ch.A, t(M), mult = sqrt(2)) # updating with cross prod(M), not M[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol}) ha s been already used, duplicate ignored \relax l.1625 \aliasA{chol}{chol-methods}{chol} [2429] Underfull \hbox (badness 10000) in paragraph at lines 1730--1734 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 1735--1739 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 1735--1739 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2430] [2431] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.chol2inv} ) has been already used, duplicate ignored \relax l.1854 ...sA{chol2inv}{chol2inv-methods}{chol2inv} [2432] [2433] Underfull \hbox (badness 1931) in paragraph at lines 1990--1995 []\T1/ptm/m/n/10 a nu-meric vec-tor of length []\T1/pcr/m/n/10 n*n []\T1/ptm/m/ n/10 ([]\T1/pcr/m/n/10 Cholesky[]\T1/ptm/m/n/10 ) or []\T1/pcr/m/n/10 n*(n+1)/2 []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 pCholesky[]\T1/ptm/m/n/10 ), where Underfull \hbox (badness 1226) in paragraph at lines 2005--2008 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 CholeskyFactorization[][][][]\T1/pt m/m/n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1 /ptm/m/n/10 , by class Underfull \hbox (badness 3000) in paragraph at lines 2011--2019 []\T1/ptm/m/n/10 Objects can be gen-er-ated di-rectly by calls of the form []\T 1/pcr/m/n/10 new("Cholesky", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 2028--2032 []\T1/pcr/m/n/10 signature(from = "pCholesky", to = "dtpMatrix")[]\T1/ptm/m/n/1 0 : re-turns a Underfull \hbox (badness 10000) in paragraph at lines 2032--2035 []\T1/pcr/m/n/10 signature(from = "p?Cholesky", logarithm = "logical")[]\T1/ptm /m/n/10 : [2434] Underfull \hbox (badness 10000) in paragraph at lines 2066--2070 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and [2435] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2113--2113 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2121--2121 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] [2436] Underfull \hbox (badness 10000) in paragraph at lines 2252--2259 []\T1/ptm/m/n/10 a [][]fi-nite[][][] num-ber. The ma-trix that is fac-tor-ized is []\T1/pcr/m/n/10 A + Imult * Underfull \hbox (badness 1946) in paragraph at lines 2252--2259 \T1/pcr/m/n/10 - diag(abs(A))) []\T1/ptm/m/n/10 en-sures that []\T1/pcr/m/n/10 A + Imult * diag(nrow(A)) []\T1/ptm/m/n/10 is di- [2437] Underfull \hbox (badness 10000) in paragraph at lines 2299--2312 []\T1/ptm/m/n/10 An ob-ject rep-re-sent-ing the fac-tor-iza-tion, in-her-it-ing from vir-tual class Underfull \hbox (badness 10000) in paragraph at lines 2315--2319 \T1/pcr/m/n/10 double / dpstrf . f$[][]\T1/ptm/m/n/10 , [][]$\T1/pcr/m/n/10 htt ps : / / netlib . org / lapack / double / dpotrf . f$[][]\T1/ptm/m/n/10 , and Underfull \hbox (badness 1917) in paragraph at lines 2320--2324 []\T1/ptm/m/n/10 The CHOLMOD source code; see [][]$\T1/pcr/m/n/10 https : / / g ithub . com / DrTimothyAldenDavis / Underfull \hbox (badness 8132) in paragraph at lines 2320--2324 \T1/pcr/m/n/10 SuiteSparse$[][]\T1/ptm/m/n/10 , no-tably the header file `\T1/p cr/m/n/10 CHOLMOD/Include/cholmod.h\T1/ptm/m/n/10 ' defin-ing [2438] [2439] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2437--2437 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2438--2438 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = TRUE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2439--2439 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = TRUE, super = TRUE )),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2441--2441 [] \T1/pcr/m/n/9 list(simpl1 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = TRUE),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2442--2442 [] \T1/pcr/m/n/9 simpl0 = Cholesky(A4, perm = FALSE, super = FALSE, L DL = FALSE),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 2443--2443 [] \T1/pcr/m/n/9 super0 = Cholesky(A4, perm = FALSE, super = TRUE )))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2447--2447 []\T1/pcr/m/n/9 rapply2 <- function(object, f, ...) rapply(object, f, , , how = "list", ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2440] Overfull \hbox (42.18039pt too wide) in paragraph at lines 2514--2514 [] \T1/pcr/m/n/9 x = c(1, 6, 38, 10, 60, 103, -4, 6, -32, -247, -2, - 16, -128, -2, -67))[] Underfull \vbox (badness 10000) has occurred while \output is active [2441] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2610--2610 [] \T1/pcr/m/n/9 show(a1 <- sparseMatrix(i= c(1:4), j=c(2:4,1), x = 2, dimnames=dns))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 2614--2614 [] \T1/pcr/m/n/9 show(a2 <- sparseMatrix(i= c(1:4,4), j=c(2:4,1:2), x = TRUE, dimnames=dns))[] [2442] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2621--2621 [] \T1/pcr/m/n/9 a. <- sparseMatrix(i=4:1, j=1:4, dimnames=list(n4, n4), repr ="T") # no \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 x\TS1/pcr/m/n/9 '[] [2443] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colMeans} ) has been already used, duplicate ignored \relax l.2696 ...asA{colMeans}{colSums-methods}{colMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colSums}) has been already used, duplicate ignored \relax l.2704 \aliasA{colSums}{colSums-methods}{colSums} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowMeans} ) has been already used, duplicate ignored \relax l.2711 ...asA{rowMeans}{colSums-methods}{rowMeans} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rowSums}) has been already used, duplicate ignored \relax l.2719 \aliasA{rowSums}{colSums-methods}{rowSums} Underfull \hbox (badness 2922) in paragraph at lines 2771--2775 []\T1/ptm/m/n/10 logical in-di-cat-ing if the re-sult should be sparse, i.e., i n-her-it-ing from Underfull \hbox (badness 1728) in paragraph at lines 2771--2775 \T1/ptm/m/n/10 class [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/n/10 . Only ap-pli-ca-ble when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 is in-her-it-ing fr om a Underfull \hbox (badness 1237) in paragraph at lines 2782--2785 [][][]\T1/pcr/m/n/10 dimnames[][][](x) []\T1/ptm/m/n/10 are only kept (as [][][ ]\T1/pcr/m/n/10 names[][][](v)[]\T1/ptm/m/n/10 ) when the re-sult-ing []\T1/pcr /m/n/10 v []\T1/ptm/m/n/10 is [][][]\T1/pcr/m/n/10 numeric[][][][]\T1/ptm/m/n/1 0 , since [2444] [2445] Underfull \hbox (badness 3547) in paragraph at lines 2888--2891 []\T1/ptm/m/n/10 a num-ber $\OML/cmm/m/it/10 > \OT1/cmr/m/n/10 0$\T1/ptm/m/n/10 , the es-ti-mated (1-norm) con-di-tion num-ber $[]$; when [2446] [2447] [2448] [2449] [2450] Underfull \hbox (badness 10000) in paragraph at lines 3290--3293 []\T1/pcr/m/n/10 signature(from = "denseLU", logarithm = "logical")[]\T1/ptm/m/ n/10 : com- [2451] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3345--3345 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3352--3352 [] \T1/pcr/m/n/9 new( "pMatrix", Dim = c(n, n), Dimnames = c(dn[ 1L], list(NULL)),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3355--3355 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = list( NULL, NULL),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 3358--3358 [] \T1/pcr/m/n/9 new("dtrMatrix", Dim = c(n, n), Dimnames = c(lis t(NULL), dn[2L]),[] [2452] Underfull \hbox (badness 7379) in paragraph at lines 3486--3488 []\T1/pcr/m/n/10 signature(x = "dgCMatrix")[]\T1/ptm/m/n/10 : com-putes the LU de-com-po-si-tion of a square [2453] [2454] [2455] Underfull \hbox (badness 4846) in paragraph at lines 3707--3711 []\T1/ptm/m/n/10 Note that both []\T1/pcr/m/n/10 new(.) []\T1/ptm/m/n/10 and [] [][]\T1/pcr/m/n/10 spMatrix[][][] []\T1/ptm/m/n/10 con-struc-tors for []\T1/pcr /m/n/10 "dgTMatrix" []\T1/ptm/m/n/10 (and other Underfull \hbox (badness 2717) in paragraph at lines 3712--3716 []\T1/ptm/m/n/10 However this means that a ma-trix typ-i-cally can be stored in more than one pos-si-ble [2456] Underfull \hbox (badness 5231) in paragraph at lines 3757--3762 []\T1/ptm/m/n/10 Construct a for-mally di-ag-o-nal [][][]\T1/pcr/m/n/10 Matrix[ ][][][]\T1/ptm/m/n/10 , i.e., an ob-ject in-her-it-ing from vir-tual class Overfull \hbox (84.78088pt too wide) in paragraph at lines 3768--3768 []\T1/pcr/m/n/10 .sparseDiagonal(n, x = NULL, uplo = "U", shape = "t", unitri = TRUE, kind, cols)[] [2457] Underfull \hbox (badness 10000) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .trDiagonal() []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 .symDiagon al() []\T1/ptm/m/n/10 are sim-ple wrap-pers, for Underfull \hbox (badness 6792) in paragraph at lines 3824--3827 []\T1/pcr/m/n/10 .sparseDiagonal(shape = "t") []\T1/ptm/m/n/10 and []\T1/pcr/m/ n/10 .sparseDiagonal(shape = "s")[]\T1/ptm/m/n/10 , re-spec- [2458] Underfull \hbox (badness 3646) in paragraph at lines 3901--3904 []\T1/ptm/m/n/10 the [][][]\T1/pcr/m/n/10 dimnames[][][][]\T1/ptm/m/n/10 , a [] [][]\T1/pcr/m/n/10 list[][][][]\T1/ptm/m/n/10 , see the [][][]\T1/pcr/m/n/10 Ma trix[][][] []\T1/ptm/m/n/10 class de-scrip-tion. Typ-i-cally Underfull \hbox (badness 6542) in paragraph at lines 3936--3940 []\T1/pcr/m/n/10 signature(x = "diagonalMatrix")[]\T1/ptm/m/n/10 : all these gr oup meth-ods re-turn a Underfull \hbox (badness 4518) in paragraph at lines 3945--3951 []\T1/pcr/m/n/10 signature(e1 = "ddiMatrix", e2="denseMatrix")[]\T1/ptm/m/n/10 : the re-sult is from class [2459] Underfull \hbox (badness 10000) in paragraph at lines 3952--3956 []\T1/pcr/m/n/10 (object = "diagonalMatrix")[]\T1/ptm/m/n/10 : Re-turns an ob-j ect of S3 class Underfull \hbox (badness 2318) in paragraph at lines 3962--3966 [][][]\T1/pcr/m/n/10 Diagonal[][][]() []\T1/ptm/m/n/10 as con-struc-tor of thes e ma-tri-ces, and [][][]\T1/pcr/m/n/10 isDiagonal[][][][]\T1/ptm/m/n/10 . [][][ ]\T1/pcr/m/n/10 ddiMatrix[][][] []\T1/ptm/m/n/10 and [2460] [2461] [2462] Underfull \hbox (badness 10000) in paragraph at lines 4219--4221 []\T1/pcr/m/n/10 signature(x = "dMatrix", digits = "numeric")[]\T1/ptm/m/n/10 : this group con-tains [2463] [2464] Overfull \hbox (69.18036pt too wide) in paragraph at lines 4360--4360 []\T1/pcr/m/n/9 stopifnot(all.equal(S9p0, S9p))# same as as default, but diffe rent from the random one[] [2465] Underfull \hbox (badness 2469) in paragraph at lines 4474--4477 []\T1/pcr/m/n/10 signature(x = "dpoMatrix")[]\T1/ptm/m/n/10 : Re-turns the [][] []\T1/pcr/m/n/10 determinant[][][] []\T1/ptm/m/n/10 of []\T1/pcr/m/n/10 x[]\T1/ ptm/m/n/10 , via [2466] Underfull \hbox (badness 10000) in paragraph at lines 4497--4502 []\T1/ptm/m/n/10 Currently the va-lid-ity meth-ods for these classes such as Underfull \hbox (badness 2020) in paragraph at lines 4497--4502 [][][]\T1/pcr/m/n/10 getValidity[][][](getClass("dpoMatrix")) []\T1/ptm/m/n/10 for ef-fi-ciency rea-sons only check the di- Underfull \hbox (badness 1748) in paragraph at lines 4503--4512 \T1/pcr/m/n/10 error=identity), "error") []\T1/ptm/m/n/10 . In-deed, when \T1/p tm/m/it/10 co-erc-ing \T1/ptm/m/n/10 to these classes, a ver-sion Underfull \hbox (badness 1590) in paragraph at lines 4503--4512 \T1/ptm/m/n/10 of [][][]\T1/pcr/m/n/10 Cholesky[][][]() []\T1/ptm/m/n/10 or [][ ][]\T1/pcr/m/n/10 chol[][][]() []\T1/ptm/m/n/10 is typ-i-cally used, e.g., see []\T1/pcr/m/n/10 selectMethod("coerce", Underfull \hbox (badness 6675) in paragraph at lines 4559--4566 []\T1/ptm/m/n/10 a [][][]\T1/pcr/m/n/10 Matrix[][][][]\T1/ptm/m/n/10 , typ-i-ca lly in-her-it-ing from vir-tual class [][][]\T1/pcr/m/n/10 sparseMatrix[][][][] \T1/ptm/m/n/10 . Underfull \hbox (badness 6493) in paragraph at lines 4559--4566 [][][]\T1/pcr/m/n/10 denseMatrix[][][] []\T1/ptm/m/n/10 and tra-di-tional vec-t ors and ma-tri-ces are co-erced to [2467] Underfull \hbox (badness 10000) in paragraph at lines 4574--4582 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing if the re-sult must in-herit from vi r-tual class Underfull \hbox (badness 1365) in paragraph at lines 4574--4582 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 . If []\T1/pcr/m/n/10 FALSE []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 in-her-its from [][][]\T1/pcr/m/n/10 RsparseMatrix[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4597--4600 []\T1/ptm/m/n/10 Function [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/ 10 , for con-struct-ing ob-jects in-her-it-ing from vir-tual class [2468] Underfull \hbox (badness 10000) in paragraph at lines 4641--4645 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsCMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 2103) in paragraph at lines 4641--4645 []\T1/pcr/m/n/10 new("dsTMatrix", ...)[]\T1/ptm/m/n/10 , or au-to-mat-i-cally v ia e.g., []\T1/pcr/m/n/10 as(*, "symmetricMatrix")[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1571) in paragraph at lines 4691--4694 []\T1/pcr/m/n/10 signature(x = "dsCMatrix", pivot = "logical")[]\T1/ptm/m/n/10 : Re-turns (and stores) the [2469] [2470] Underfull \hbox (badness 1221) in paragraph at lines 4834--4837 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "dMatrix"[]\T1/ptm/m/n/10 , by class [] \T1/pcr/m/n/10 "dsparseMatrix"[]\T1/ptm/m/n/10 ; class []\T1/pcr/m/n/10 "sparse Matrix"[]\T1/ptm/m/n/10 , by classes Underfull \hbox (badness 1400) in paragraph at lines 4844--4847 []\T1/pcr/m/n/10 signature(x = "dsRMatrix", uplo = "character")[]\T1/ptm/m/n/10 : if []\T1/pcr/m/n/10 uplo == [2471] Underfull \hbox (badness 10000) in paragraph at lines 4896--4898 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form []\T1/pcr/m/n/10 new("dsyMatrix", ...) []\T1/ptm/m/n/10 or Underfull \hbox (badness 1365) in paragraph at lines 4932--4935 []\T1/pcr/m/n/10 signature(x = "dspMatrix", type = "character")[]\T1/ptm/m/n/10 , or []\T1/pcr/m/n/10 x = "dsyMatrix" [2472] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4978--4978 []\T1/pcr/m/n/9 stopifnot(all(S1 == S2)) # equal "seen as matrix", but differ internally :[] [2473] [2474] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5084--5084 []\T1/pcr/m/n/9 U5 <- new("dtCMatrix", i= c(1L, 0:3), p=c(0L,0L,0:2, 5L), Dim = c(5L, 5L),[] Underfull \hbox (badness 3635) in paragraph at lines 5139--5143 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ddenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "triangularMatrix"[]\T1/ptm/m/n/10 , di-rectly. Cla ss Underfull \hbox (badness 10000) in paragraph at lines 5148--5151 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 5151--5155 []\T1/pcr/m/n/10 signature(x = "dtpMatrix", logarithm = "logical")[]\T1/ptm/m/n /10 : the [2475] [2476] [2477] [2478] Underfull \hbox (badness 10000) in paragraph at lines 5399--5401 []\T1/ptm/m/n/10 a ma-trix fac-tor-iza-tion, typ-i-cally in-her-it-ing from vir -tual class Overfull \hbox (29.27832pt too wide) in paragraph at lines 5418--5418 [] \T1/pcr/m/n/10 all.equal(as(x, "matrix"), as(Reduce(\TS1/cmtt/m/n/10 `\T 1/pcr/m/n/10 %*%\TS1/cmtt/m/n/10 `\T1/pcr/m/n/10 , expand2(y)), "matrix")) Overfull \hbox (37.71342pt too wide) in alignment at lines 5449--5449 [] [] [2479] Underfull \hbox (badness 7064) in paragraph at lines 5477--5494 []\T1/pcr/m/n/10 signature(x = "p?BunchKaufman")[]\T1/ptm/m/n/10 : ex-pands the fac-tor-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = Underfull \hbox (badness 3000) in paragraph at lines 5506--5513 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : ex-pands the fac-to r-iza-tion $\OML/cmm/m/it/10 A \OT1/cmr/m/n/10 = \OML/cmm/m/it/10 P[]LU$ \T1/pt m/m/n/10 as Underfull \hbox (badness 2735) in paragraph at lines 5522--5529 []\T1/pcr/m/n/10 signature(x = "CHMfactor")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/ 10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L)[]\T1/p tm/m/n/10 . Underfull \hbox (badness 1337) in paragraph at lines 5529--5544 []\T1/pcr/m/n/10 signature(x = "sparseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/1 0 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(P, L, U, Underfull \hbox (badness 2680) in paragraph at lines 5529--5544 \T1/pcr/m/n/10 Q)[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 expand(x)[["Q"]] []\T1/ptm /m/n/10 and []\T1/pcr/m/n/10 expand2(x)[["P2."]] []\T1/ptm/m/n/10 rep-re-sent t he same per- Underfull \hbox (badness 5374) in paragraph at lines 5529--5544 \T1/ptm/m/n/10 mu-ta-tion ma-trix $\OML/cmm/m/it/10 P[]$ \T1/ptm/m/n/10 but hav e op-po-site []\T1/pcr/m/n/10 margin []\T1/ptm/m/n/10 slots and in-verted []\T1 /pcr/m/n/10 perm []\T1/ptm/m/n/10 slots. Underfull \hbox (badness 2073) in paragraph at lines 5544--5549 []\T1/pcr/m/n/10 signature(x = "denseLU")[]\T1/ptm/m/n/10 : as []\T1/pcr/m/n/10 expand2[]\T1/ptm/m/n/10 , but re-turn-ing []\T1/pcr/m/n/10 list(L, U, P)[]\T1/ ptm/m/n/10 . [2480] [2481] [2482] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5752--5752 []\T1/pcr/m/n/9 str(pores <- readMM(system.file("external/pores_1.mtx", packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5753--5753 []\T1/pcr/m/n/9 str(utm <- readHB(system.file("external/utm300.rua" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5754--5754 []\T1/pcr/m/n/9 str(lundA <- readMM(system.file("external/lund_a.mtx" , packag e = "Matrix")))[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5755--5755 []\T1/pcr/m/n/9 str(lundA <- readHB(system.file("external/lund_a.rsa" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5756--5756 []\T1/pcr/m/n/9 ## https://math.nist.gov/MatrixMarket/data/Harwell-Boeing/coun terx/counterx.htm[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5757--5757 []\T1/pcr/m/n/9 str(jgl <- readMM(system.file("external/jgl009.mtx" , packag e = "Matrix")))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 5763--5763 []\T1/pcr/m/n/9 u. <- url("https://www.cise.ufl.edu/research/sparse/RB/Boeing/ msc00726.tar.gz")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5768--5768 []\T1/pcr/m/n/9 ## Store as MatrixMarket (".mtx") file, here inside temporary dir./folder:[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5771--5771 []\T1/pcr/m/n/9 file.info(MMfile)[,c("size", "ctime")] # (some confirmation of the file\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s)[] [2483] Overfull \hbox (58.38037pt too wide) in paragraph at lines 5781--5781 []\T1/pcr/m/n/9 ## has columns (i, j, x) -> we can use via do.call() as argume nts to sparseMatrix():[] [2484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5843--5843 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = TRUE), crossprod(L, y))[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5844--5844 [] \T1/pcr/m/n/9 all.equal(facmul(x, nm, y, trans = TRUE, left = FALSE), t crossprod(y, L))[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5923--5923 []\T1/pcr/m/n/10 .diag2dense(from, kind = ".", shape = "t", packed = FALSE, up lo = "U")[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5925--5925 []\T1/pcr/m/n/10 .m2dense(from, class = ".ge", uplo = "U", diag = "N", trans = FALSE)[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5928--5928 []\T1/pcr/m/n/10 .diag2sparse(from, kind = ".", shape = "t", repr = "C", uplo = "U")[] [2485] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5930--5930 []\T1/pcr/m/n/10 .m2sparse(from, class = ".gC", uplo = "U", diag = "N", trans = FALSE)[] Underfull \hbox (badness 10000) in paragraph at lines 6000--6002 []\T1/ptm/m/n/10 a string in []\T1/pcr/m/n/10 c("trace", "sumLog", "prod", "min ", "max", [2486] Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 [][]\T1/pcr/m/n/10 .solve.dgC.*(a, b)[]\T1/ptm/b/n/10 : []\T1/pcr/m/n/10 .solv e.dgC.lu(a, b) []\T1/ptm/m/n/10 needs a square ma-trix []\T1/pcr/m/n/10 a[]\T1/ ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 6073--6079 []\T1/pcr/m/n/10 .solve.dgC.qr(a, b) []\T1/ptm/m/n/10 needs a ``long'' ma-trix []\T1/pcr/m/n/10 a[]\T1/ptm/m/n/10 , with []\T1/pcr/m/n/10 nrow(a) >= ncol(a)[] \T1/ptm/m/n/10 . [2487] Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 [][]\T1/pcr/m/n/10 .updateCHMfactor(object, parent, mult)[]\T1/ptm/b/n/10 : [] \T1/pcr/m/n/10 .updateCHMfactor []\T1/ptm/m/n/10 up- Underfull \hbox (badness 10000) in paragraph at lines 6087--6096 \T1/ptm/m/n/10 dates []\T1/pcr/m/n/10 object []\T1/ptm/m/n/10 with the re-sult of Cholesky fac-tor-iz-ing []\T1/pcr/m/n/10 F(parent) + mult[1] * Underfull \hbox (badness 2443) in paragraph at lines 6087--6096 \T1/pcr/m/n/10 diag(nrow(parent))[]\T1/ptm/m/n/10 , i.e., []\T1/pcr/m/n/10 F(pa rent) []\T1/ptm/m/n/10 plus []\T1/pcr/m/n/10 mult[1] []\T1/ptm/m/n/10 times the iden-tity ma-trix, [2488] [2489] [2490] [2491] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.image}) h as been already used, duplicate ignored \relax l.6399 \aliasA{image}{image-methods}{image} [2492] [2493] Underfull \hbox (badness 4120) in paragraph at lines 6495--6498 []\T1/ptm/m/n/10 All meth-ods cur-rently end up call-ing the method for the [][ ][]\T1/pcr/m/n/10 dgTMatrix[][][] []\T1/ptm/m/n/10 class. Use Overfull \hbox (47.58038pt too wide) in paragraph at lines 6514--6514 []\T1/pcr/m/n/9 stopifnot(!is.null(leg <- imgC$legend), is.list(leg$right)) # failed for 2 days ..[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6534--6534 []\T1/pcr/m/n/9 ## Using (xlim,ylim) has advantage : matrix dimension and (col /row) indices:[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6540--6540 [] \T1/pcr/m/n/9 I2 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, border.col=NA)[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6541--6541 [] \T1/pcr/m/n/9 I3 <- image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd =2, border.col=NA)[] Overfull \hbox (144.78027pt too wide) in paragraph at lines 6545--6545 []\T1/pcr/m/n/9 image(USCounties, c(1,100), c(1,100), useAbs=FALSE, lwd=3, bor der.col = adjustcolor("skyblue", 1/2))[] [2494] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6553--6553 []\T1/pcr/m/n/9 image(USCounties, useRaster = TRUE) # should not suffer from a nti-aliasing[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 6556--6556 [] \T1/pcr/m/n/9 ## and now look at the *.png image in a viewer you can easi ly zoom in and out[] [2495] Underfull \hbox (badness 10000) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 signature(x = "indMatrix", y = "Matrix") []\T1/ptm/m/n/10 and oth-ers listed by Underfull \hbox (badness 1286) in paragraph at lines 6684--6687 []\T1/pcr/m/n/10 showMethods("%*%", classes = "indMatrix")[]\T1/ptm/m/n/10 : ma -trix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 6687--6690 []\T1/pcr/m/n/10 signature(from = "numeric", to = "indMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 3375) in paragraph at lines 6690--6695 []\T1/pcr/m/n/10 signature(from = "list", to = "indMatrix")[]\T1/ptm/m/n/10 : s up-port-ing []\T1/pcr/m/n/10 indMatrix [2496] Underfull \hbox (badness 4156) in paragraph at lines 6701--6703 []\T1/pcr/m/n/10 signature(x = "indMatrix")[]\T1/ptm/m/n/10 : row and Underfull \hbox (badness 1337) in paragraph at lines 6707--6711 []\T1/pcr/m/n/10 signature(X = "indMatrix", Y = "indMatrix")[]\T1/ptm/m/n/10 : Kro-necker prod-uct of Underfull \hbox (badness 1776) in paragraph at lines 6717--6726 []\T1/ptm/m/n/10 Fabian Scheipl at `\T1/pcr/m/n/10 uni-muenchen.de\T1/ptm/m/n/1 0 ', build-ing on the ex-ist-ing class [][][]\T1/pcr/m/n/10 pMatrix[][][] []\T1 /ptm/m/n/10 af-ter Underfull \hbox (badness 1253) in paragraph at lines 6717--6726 \T1/ptm/m/n/10 a nice hike's con-ver-sa-tion with Mar-tin Maech-ler. Meth-ods f or [][][]\T1/pcr/m/n/10 crossprod[][][](x, y) []\T1/ptm/m/n/10 and [2497] Underfull \hbox (badness 1509) in paragraph at lines 6810--6812 []\T1/ptm/m/n/10 an in-te-ger off-set, in-di-cat-ing that the re-sult should be a per-mu-ta-tion of Underfull \hbox (badness 10000) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 invertPerm(p) []\T1/ptm/m/n/10 re-turns an in-te-ger vec-tor o f length []\T1/pcr/m/n/10 length(p) []\T1/ptm/m/n/10 such that Underfull \hbox (badness 4441) in paragraph at lines 6837--6841 []\T1/pcr/m/n/10 p[invertPerm(p)] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 invertP erm(p)[p] []\T1/ptm/m/n/10 are both []\T1/pcr/m/n/10 seq_along(p)[]\T1/ptm/m/n/ 10 , i.e., the [2498] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6874--6874 []\T1/pcr/m/n/9 ## Product of transpositions (1 2)(2 1)(4 3)(6 8)(10 1) = (3 4 )(6 8)(1 10)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.anyNA}) h as been already used, duplicate ignored \relax l.6888 \aliasA{anyNA}{is.na-methods}{anyNA} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.finite }) has been already used, duplicate ignored \relax l.6895 ...asA{is.finite}{is.na-methods}{is.finite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.infini te}) has been already used, duplicate ignored \relax l.6903 ...is.infinite}{is.na-methods}{is.infinite} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.na}) h as been already used, duplicate ignored \relax l.6911 \aliasA{is.na}{is.na-methods}{is.na} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.is.nan}) has been already used, duplicate ignored \relax l.6918 \aliasA{is.nan}{is.na-methods}{is.nan} [2499] [2500] [2501] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.isSymmetr ic}) has been already used, duplicate ignored \relax l.7077 ...etric}{isSymmetric-methods}{isSymmetric} Overfull \hbox (138.78088pt too wide) in paragraph at lines 7124--7124 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, tol1 = 8 * tol, ...)[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 7126--7126 []\T1/pcr/m/n/10 isSymmetric(object, checkDN = TRUE, tol = 100 * .Machine$doub le.eps, ...)[] [2502] Overfull \hbox (20.58041pt too wide) in paragraph at lines 7181--7181 []\T1/pcr/m/n/9 isSymmetric(as(M, "generalMatrix")) # still symmetric, even if not "formally"[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7185--7185 []\T1/pcr/m/n/9 showMethods("isSymmetric", includeDefs = TRUE) # includes S3 g eneric from base[] [2503] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7268--7268 []\T1/pcr/m/n/9 isTriangular(as(M, "generalMatrix")) # still triangular, even if not "formally"[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7295--7295 []\T1/pcr/m/n/10 KhatriRao(X, Y = X, FUN = "*", sparseY = TRUE, make.dimnames = FALSE) [2504] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7371--7371 []\T1/pcr/m/n/9 stopifnot(all(K1 <- KhatriRao(nd, zm) == 0), identical(dim(K1) , c(12L, 4L)),[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7372--7372 [] \T1/pcr/m/n/9 all(K2 <- KhatriRao(zm, nd) == 0), identical(dim(K2) , c(12L, 4L)))[] [2505] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7379--7379 [] \T1/pcr/m/n/9 identical(dimnames(KhatriRao(m, d0, make.dimnames=TRUE)), d imnames(Kmd)))[] [2506] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.kronecker }) has been already used, duplicate ignored \relax l.7453 ...kronecker}{kronecker-methods}{kronecker} Underfull \hbox (badness 1062) in paragraph at lines 7552--7555 []\T1/pcr/m/n/10 ldenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both [2507] Underfull \hbox (badness 6063) in paragraph at lines 7578--7581 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2508 pdfTeX warning (ext4): destination with the same identifier (name{Rfn.*,ndiMatr ix,Matrix.Rdash.method}) has been already used, duplicate ignored ...shipout:D \box_use:N \l_shipout_box \__shipout_drop_firstpage_... l.7691 C lass \code{"\LinkA{sparseMatrix}{sparseMatrix.Rdash.class}"}, by cla... ] Underfull \hbox (badness 2635) in paragraph at lines 7738--7743 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 7738--7743 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ldenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 7746--7749 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2509] Underfull \hbox (badness 10000) in paragraph at lines 7804--7814 []\T1/pcr/m/n/10 lsTMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltTMatrix[]\T 1/ptm/m/n/10 ) or in com-pressed column-oriented form (class Underfull \hbox (badness 1242) in paragraph at lines 7804--7814 [][][]\T1/pcr/m/n/10 CsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pc r/m/n/10 lgCMatrix[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lsCMatrix[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 ltCMatrix[]\T1/ptm/m/n/10 ) or--\T1/ptm/m/it/10 rarely\ T1/ptm/m/n/10 --in [2510] Underfull \hbox (badness 3179) in paragraph at lines 7886--7889 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2511] Underfull \hbox (badness 10000) in paragraph at lines 7971--7974 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2512] Underfull \hbox (badness 10000) in paragraph at lines 8032--8035 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2513] [2514] [2515] Underfull \hbox (badness 10000) in paragraph at lines 8270--8273 []\T1/ptm/m/n/10 vector of all non-zero en-tries of []\T1/pcr/m/n/10 x[]\T1/ptm /m/n/10 ; ex-ists \T1/ptm/b/n/10 only \T1/ptm/m/n/10 when []\T1/pcr/m/n/10 as(x , Underfull \hbox (badness 1490) in paragraph at lines 8292--8294 []\T1/pcr/m/n/10 mat2triplet() []\T1/ptm/m/n/10 is con-cep-tu-ally the \T1/ptm/ m/it/10 in-verse \T1/ptm/m/n/10 func-tion of [][][]\T1/pcr/m/n/10 spMatrix[][][ ] []\T1/ptm/m/n/10 and (one case of) [2516] pdfTeX warning (ext4): destination with the same identifier (name{Rfn..Rpcent.* .Rpcent.}) has been already used, duplicate ignored \relax l.8313 ...*\%}{matmult-methods}{.Rpcent.*.Rpcent.} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.crossprod }) has been already used, duplicate ignored \relax l.8387 ...A{crossprod}{matmult-methods}{crossprod} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.tcrosspro d}) has been already used, duplicate ignored \relax l.8463 ...tcrossprod}{matmult-methods}{tcrossprod} Underfull \hbox (badness 1881) in paragraph at lines 8549--8555 \T1/ptm/m/n/10 ally im-ple-mented ef-fi-ciently with-out com-put-ing [][][]\T1/ pcr/m/n/10 t[][][](.)[]\T1/ptm/m/n/10 's un-nec-es-sar-ily. They also re-turn [2517] Underfull \hbox (badness 10000) in paragraph at lines 8618--8621 []\T1/pcr/m/n/10 signature(x = "dgeMatrix", y = "dgeMatrix")[]\T1/ptm/m/n/10 : Ma-trix mul-ti-pli-ca-tion; Underfull \hbox (badness 10000) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na-tures (use Underfull \hbox (badness 3557) in paragraph at lines 8621--8626 []\T1/pcr/m/n/10 showMethods("%*%", class="dtrMatrix")[]\T1/ptm/m/n/10 ): ma-tr ix mul-ti-pli-ca-tion. Mul-ti- Underfull \hbox (badness 6608) in paragraph at lines 8626--8630 \T1/ptm/m/n/10 sig-na-tures, use []\T1/pcr/m/n/10 showMethods("crossprod", clas s = "dgeMatrix")[]\T1/ptm/m/n/10 , ma-trix Underfull \hbox (badness 1552) in paragraph at lines 8636--8637 []\T1/pcr/m/n/10 signature(x = "dtrMatrix", y = "matrix") []\T1/ptm/m/n/10 and other sig-na- [2518] [2519] [2520] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.det}) has been already used, duplicate ignored \relax l.8859 \aliasA{det}{Matrix-class}{det} Underfull \hbox (badness 1337) in paragraph at lines 8933--8936 []\T1/pcr/m/n/10 signature(x = "Matrix", value = "list")[]\T1/ptm/m/n/10 : set the []\T1/pcr/m/n/10 dimnames []\T1/ptm/m/n/10 to a Underfull \hbox (badness 10000) in paragraph at lines 8949--8952 [2521] Underfull \hbox (badness 10000) in paragraph at lines 8958--8960 []\T1/pcr/m/n/10 signature(from = "ANY", to = "Matrix")[]\T1/ptm/m/n/10 : This re-lies on a cor-rect [2522] [2523] Underfull \hbox (badness 10000) in paragraph at lines 9128--9132 []\T1/pcr/m/n/10 CholeskyFactorization[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Bunch KaufmanFactorization[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9151--9153 []\T1/pcr/m/n/10 signature(x = "MatrixFactorization", logarithm = Underfull \hbox (badness 10000) in paragraph at lines 9168--9171 []\T1/pcr/m/n/10 signature(obj = "MatrixFactorization")[]\T1/ptm/m/n/10 : re-tu rns []\T1/pcr/m/n/10 obj []\T1/ptm/m/n/10 with Underfull \hbox (badness 3019) in paragraph at lines 9177--9180 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 CholeskyFactorization[]\T 1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 Cholesky[][][][]\T1/ptm/m/n/10 , [][ ][]\T1/pcr/m/n/10 pCholesky[][][][]\T1/ptm/m/n/10 , and [2524] Underfull \hbox (badness 10000) in paragraph at lines 9181--9183 []\T1/ptm/m/n/10 Classes ex-tend-ing []\T1/pcr/m/n/10 BunchKaufmanFactorization []\T1/ptm/m/n/10 , namely [][][]\T1/pcr/m/n/10 BunchKaufman[][][] []\T1/ptm/m/n /10 and Underfull \hbox (badness 10000) in paragraph at lines 9196--9199 []\T1/ptm/m/n/10 Generic func-tions [][][]\T1/pcr/m/n/10 expand1[][][] []\T1/pt m/m/n/10 and [][][]\T1/pcr/m/n/10 expand2[][][] []\T1/ptm/m/n/10 for con-struct -ing ma-trix fac-tors from Underfull \hbox (badness 1062) in paragraph at lines 9225--9228 []\T1/pcr/m/n/10 ndenseMatrix []\T1/ptm/m/n/10 is the vir-tual class of all den se \T1/ptm/b/n/10 l\T1/ptm/m/n/10 ogical (S4) ma-tri-ces. It ex-tends both Underfull \hbox (badness 6063) in paragraph at lines 9257--9260 []\T1/pcr/m/n/10 signature(x = "ndenseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-call y equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2525] Underfull \hbox (badness 3312) in paragraph at lines 9314--9316 []\T1/ptm/m/n/10 logical in-di-cat-ing if []\T1/pcr/m/n/10 X <- (X + t(X))/2 [] \T1/ptm/m/n/10 should be done, af-ter []\T1/pcr/m/n/10 X <- [2526] [2527] Overfull \hbox (85.38034pt too wide) in paragraph at lines 9417--9417 [] \T1/pcr/m/n/9 all.equal(n.A.m, unname(as.matrix(n.A$mat)), tolerance = 1e -15)# seen rel.d.= 1.46e-16[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9457--9457 []\T1/pcr/m/n/9 stopifnot(all.equal(ncr, ncF))# norm type does not matter at a ll in this example[] [2528] Underfull \hbox (badness 2635) in paragraph at lines 9510--9515 []\T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 , di-rec tly. Class []\T1/pcr/m/n/10 "lMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/ 10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 4229) in paragraph at lines 9510--9515 \T1/ptm/m/n/10 Class []\T1/pcr/m/n/10 "denseMatrix"[]\T1/ptm/m/n/10 , by class []\T1/pcr/m/n/10 "ndenseMatrix"[]\T1/ptm/m/n/10 . Class []\T1/pcr/m/n/10 "Matri x"[]\T1/ptm/m/n/10 , by class Underfull \hbox (badness 10000) in paragraph at lines 9518--9521 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ); use, e.g., [2529] Underfull \hbox (badness 2521) in paragraph at lines 9586--9592 []\T1/pcr/m/n/10 signature(from = "matrix", to = "nMatrix")[]\T1/ptm/m/n/10 : N ote that these co-er-cions [2530] Underfull \hbox (badness 1867) in paragraph at lines 9699--9701 []\T1/ptm/m/n/10 fast sim- [2531] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.norm}) ha s been already used, duplicate ignored \relax l.9741 \aliasA{norm}{norm-methods}{norm} [2532] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9836--9836 []\T1/pcr/m/n/9 A <- sparseMatrix(i, j, x = x) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9837--9837 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9838--9838 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Underfull \hbox (badness 2401) in paragraph at lines 9883--9893 []\T1/ptm/m/n/10 These can be stored in the ``triplet'' form ([][][]\T1/pcr/m/n /10 TsparseMatrix[][][][]\T1/ptm/m/n/10 , sub-classes []\T1/pcr/m/n/10 ngTMatri x[]\T1/ptm/m/n/10 , [2533] Underfull \hbox (badness 3179) in paragraph at lines 9954--9957 []\T1/pcr/m/n/10 signature(x = "lsparseMatrix")[]\T1/ptm/m/n/10 , se-man-ti-cal ly equiv-a-lent to \T1/ptm/b/n/10 base \T1/ptm/m/n/10 func-tion [2534] Underfull \hbox (badness 10000) in paragraph at lines 10034--10037 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2535] Underfull \hbox (badness 10000) in paragraph at lines 10098--10101 []\T1/ptm/m/n/10 Currently, mainly [][][]\T1/pcr/m/n/10 t[][][]() []\T1/ptm/m/n /10 and co-er-cion meth-ods (for [][][]\T1/pcr/m/n/10 as[][][](.)[]\T1/ptm/m/n/ 10 ; use, e.g., [2536] Underfull \hbox (badness 10000) in paragraph at lines 10172--10174 []\T1/ptm/m/n/10 typically a []\T1/pcr/m/n/10 "packedMatrix"[]\T1/ptm/m/n/10 , though [2537] [2538] [2539] Underfull \hbox (badness 10000) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 signature(x = "pMatrix", y = "Matrix") []\T1/ptm/m/n/10 and ot h-ers listed by Underfull \hbox (badness 8189) in paragraph at lines 10386--10389 []\T1/pcr/m/n/10 showMethods("%*%", classes = "pMatrix")[]\T1/ptm/m/n/10 : ma-t rix prod-ucts im-ple-mented Underfull \hbox (badness 10000) in paragraph at lines 10389--10393 []\T1/pcr/m/n/10 signature(from = "numeric", to = "pMatrix")[]\T1/ptm/m/n/10 : sup-port-ing typ-i-cal Underfull \hbox (badness 2460) in paragraph at lines 10397--10403 []\T1/pcr/m/n/10 signature(a = "pMatrix", b = "missing")[]\T1/ptm/m/n/10 : the in-verse per-mu-ta-tion ma-trix, [2540] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10467--10467 [] \T1/pcr/m/n/10 col.names, note.dropping.colnames = TRUE, uniD iag = TRUE,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10470--10470 []\T1/pcr/m/n/10 printSpMatrix(x, digits = NULL, maxp = max(100L, getOption("m ax.print")),[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10472--10472 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 10476--10476 []\T1/pcr/m/n/10 printSpMatrix2(x, digits = NULL, maxp = max(100L, getOption(" max.print")),[] [2541] Overfull \hbox (42.78088pt too wide) in paragraph at lines 10477--10477 [] \T1/pcr/m/n/10 zero.print = ".", col.names, note.dropping.coln ames = TRUE,[] Underfull \hbox (badness 3989) in paragraph at lines 10502--10512 []\T1/ptm/m/n/10 logical or string spec-i-fy-ing if and how col-umn names of [] \T1/pcr/m/n/10 x []\T1/ptm/m/n/10 should Underfull \hbox (badness 10000) in paragraph at lines 10502--10512 \T1/ptm/m/n/10 be printed, pos-si-bly ab-bre-vi-ated. The de-fault is taken fro m [2542] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.qr}) has been already used, duplicate ignored \relax l.10604 \aliasA{qr}{qr-methods}{qr} [2543] [2544] Overfull \hbox (25.98041pt too wide) in paragraph at lines 10736--10736 [] \T1/pcr/m/n/9 all.equal(qr.coef(qr.A1, b), drop(solve(crossprod(A1), cro ssprod(A1, b))))[] [2545] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10752--10752 [] \T1/pcr/m/n/9 ## \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 qr.coef\TS1/pcr/m/n/9 ' \ T1/pcr/m/n/9 computes unique least squares solution of "nearby" problem[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 10753--10753 [] \T1/pcr/m/n/9 ## Z x = b for some full rank Z ~ A, currently without war ning {FIXME} ![] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10796--10796 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Underfull \vbox (badness 10000) has occurred while \output is active [2546] Underfull \hbox (badness 2005) in paragraph at lines 10848--10854 []\T1/ptm/m/n/10 for a dense ma-trix, this is the rank of [][][]\T1/pcr/m/n/10 qr[][][](x, tol, Underfull \hbox (badness 10000) in paragraph at lines 10865--10868 []\T1/ptm/m/n/10 is for back com-pat-i-bil-ity; for dense []\T1/pcr/m/n/10 x[]\ T1/ptm/m/n/10 , it cor-re-sponds to [2547] [2548] Overfull \hbox (85.38034pt too wide) in paragraph at lines 10962--10962 []\T1/pcr/m/n/9 ## The meaning of \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 tol\TS1/pcr/m/ n/9 ' \T1/pcr/m/n/9 for method="qrLINPACK" and *dense* x is not entirely "scale free"[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10978--10978 []\T1/pcr/m/n/9 sapply(meths, function(.m.) rankMatrix(M15, method = .m., tol = 1e-7)) # all 14[] Overfull \hbox (52.98038pt too wide) in paragraph at lines 10985--10985 []\T1/pcr/m/n/9 (st1 <- system.time(r1 <- rankMatrix(L))) # war ning+ ~1.5 sec (2013)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 10986--10986 []\T1/pcr/m/n/9 (st2 <- system.time(r2 <- rankMatrix(L, method = "qr"))) # con siderably faster![] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.rcond}) h as been already used, duplicate ignored \relax l.11005 \aliasA{rcond}{rcond-methods}{rcond} [2549] [2550] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11121--11121 []\T1/pcr/m/n/9 rcond(x2 <- cbind(x1, 2:11))# practically 0, since x2 does not have full rank[] [2551] [2552] Underfull \hbox (badness 2150) in paragraph at lines 11287--11295 \T1/ptm/m/n/10 dices, if not []\T1/pcr/m/n/10 symmetric [][]sample.int[][][](nr ow*ncol, nnz)[]\T1/ptm/m/n/10 , then---if []\T1/pcr/m/n/10 rand.x []\T1/ptm/m/n /10 is not [2553] [2554] Underfull \hbox (badness 5147) in paragraph at lines 11444--11447 []\T1/ptm/m/n/10 Class [][][]\T1/pcr/m/n/10 SchurFactorization[][][][]\T1/ptm/m /n/10 , di-rectly. Class [][][]\T1/pcr/m/n/10 MatrixFactorization[][][][]\T1/pt m/m/n/10 , by class [2555] Underfull \hbox (badness 3179) in paragraph at lines 11459--11462 []\T1/pcr/m/n/10 signature(from = "Schur", logarithm = "logical")[]\T1/ptm/m/n/ 10 : com-putes [2556] [2557] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11623--11623 [] \T1/pcr/m/n/9 all.equal(e1, e3[order(Mod(e3), decreasing = TRUE)], toler ance = 1e-13)[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solve}) h as been already used, duplicate ignored \relax l.11633 \aliasA{solve}{solve-methods}{solve} [2558] Overfull \hbox (90.78088pt too wide) in paragraph at lines 11757--11757 []\T1/pcr/m/n/10 solve(a, b, system = c("A", "LDLt", "LD", "DLt", "L", "Lt", " D", "P", "Pt"), ...)[] Underfull \hbox (badness 1147) in paragraph at lines 11769--11775 []\T1/ptm/m/n/10 a vec-tor, [][][]\T1/pcr/m/n/10 sparseVector[][][][]\T1/ptm/m/ n/10 , ma-trix, or [][][]\T1/pcr/m/n/10 Matrix[][][] []\T1/ptm/m/n/10 sat-is-fy -ing []\T1/pcr/m/n/10 NROW(b) == Underfull \hbox (badness 3460) in paragraph at lines 11819--11824 []\T1/ptm/m/n/10 Methods for dense []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are buil t on 14 LA-PACK rou-tines: class []\T1/pcr/m/n/10 d..Matrix[]\T1/ptm/m/n/10 , w here Underfull \hbox (badness 2359) in paragraph at lines 11825--11839 []\T1/ptm/m/n/10 Methods for sparse []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 are bui lt on CXS-parse rou-tines []\T1/pcr/m/n/10 cs_lsolve[]\T1/ptm/m/n/10 , []\T1/pc r/m/n/10 cs_usolve[]\T1/ptm/m/n/10 , and [2559] Overfull \hbox (52.98038pt too wide) in paragraph at lines 11892--11892 []\T1/pcr/m/n/9 image(ia0 <- solve(a, tol = 0)) # checker board, dense [but re ally, a is singular!][] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11896--11896 [] \T1/pcr/m/n/9 ## Fails on 32-bit [Fedora 19, R 3.0.2] from Matrix 1.1-0 on [FIXME ??] only[] [2560] Underfull \hbox (badness 10000) in paragraph at lines 11919--11922 []\T1/ptm/m/n/10 Construct a sparse model or ``de-sign'' ma-trix, from a for-mu la and data frame Overfull \hbox (12.78088pt too wide) in paragraph at lines 11936--11936 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 11938--11938 [] \T1/pcr/m/n/10 drop.unused.levels = TRUE, repr = c("C", "R", "T"), giveC sparse,[] Underfull \hbox (badness 1648) in paragraph at lines 11947--11949 []\T1/ptm/m/n/10 a data frame cre-ated with [][][]\T1/pcr/m/n/10 model.frame[][ ][][]\T1/ptm/m/n/10 . If an-other sort of ob-ject, Underfull \hbox (badness 10000) in paragraph at lines 11955--11958 []\T1/ptm/m/n/10 character string or []\T1/pcr/m/n/10 NULL []\T1/ptm/m/n/10 or (co-er-ca-ble to) Underfull \hbox (badness 2591) in paragraph at lines 11955--11958 []\T1/pcr/m/n/10 "[][]sparseMatrix[][][]"[]\T1/ptm/m/n/10 , spec-i-fy-ing the c on-trasts to be ap-plied to the Underfull \hbox (badness 10000) in paragraph at lines 11966--11970 []\T1/ptm/m/n/10 should fac-tors have un-used lev-els dropped? The de-fault for Underfull \hbox (badness 2828) in paragraph at lines 11966--11970 []\T1/pcr/m/n/10 sparse.model.matrix []\T1/ptm/m/n/10 has been changed to []\T1 /pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , 2010-07, for [2561] Underfull \hbox (badness 1668) in paragraph at lines 11981--11986 [][][]\T1/pcr/m/n/10 character[][][] []\T1/ptm/m/n/10 string, one of []\T1/pcr/ m/n/10 "C"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "T"[]\T1/ptm/m/n/10 , or []\T1/pc r/m/n/10 "R"[]\T1/ptm/m/n/10 , spec-i-fy-ing the sparse Underfull \hbox (badness 3291) in paragraph at lines 12008--12013 []\T1/pcr/m/n/10 model.Matrix(sparse = TRUE) []\T1/ptm/m/n/10 from pack-age [][ ]\T1/ptm/b/n/10 Ma-trix-Mod-els[][] \T1/ptm/m/n/10 may be nowa-days be Underfull \hbox (badness 2073) in paragraph at lines 12008--12013 \T1/ptm/m/n/10 prefer-able to []\T1/pcr/m/n/10 sparse.model.matrix[]\T1/ptm/m/n /10 , as []\T1/pcr/m/n/10 model.Matrix []\T1/ptm/m/n/10 re-turns an ob-ject of class [2562] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12061--12061 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop= TRUE),"CsparseMatrix"), dim(M) == c(0, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12062--12062 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f30, drop=FALSE),"CsparseMatrix"), dim(M) == c(3, 0),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12063--12063 [] \T1/pcr/m/n/9 is(M <- fac2sparse(f12, drop= TRUE),"CsparseMatrix"), dim(M) == c(0,12),[] [2563] Underfull \hbox (badness 2961) in paragraph at lines 12125--12128 []\T1/pcr/m/n/10 signature(from = "sparseLU", logarithm = "logical")[]\T1/ptm/m /n/10 : com- Overfull \hbox (9.78043pt too wide) in paragraph at lines 12168--12168 []\T1/pcr/m/n/9 A <- as(readMM(system.file("external", "pores_1.mtx", package = "Matrix")),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12179--12179 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] [2564] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12186--12186 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12189--12189 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \hbox (badness 10000) in paragraph at lines 12214--12216 []\T1/ptm/m/n/10 This in-ter-face is rec-om-mended over di-rect con-struc-tion via calls such as Overfull \hbox (0.78088pt too wide) in paragraph at lines 12221--12221 [] \T1/pcr/m/n/10 symmetric = FALSE, triangular = FALSE, index1 = TRUE,[] [2565] Underfull \hbox (badness 2261) in paragraph at lines 12259--12265 \T1/ptm/m/n/10 of the sparse ma-trix re-sult, i.e., spec-i-fy-ing one of the vi r-tual classes [2566] Underfull \hbox (badness 10000) in paragraph at lines 12348--12351 []\T1/ptm/m/n/10 The stan-dard \T1/phv/m/n/10 R [][][]\T1/pcr/m/n/10 xtabs[][][ ](*, sparse=TRUE)[]\T1/ptm/m/n/10 , for sparse ta-bles and Overfull \hbox (4.38043pt too wide) in paragraph at lines 12361--12361 []\T1/pcr/m/n/9 (A <- sparseMatrix(i, j, x = x)) ## 8 x 10 "dgCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12365--12365 []\T1/pcr/m/n/9 (sA <- sparseMatrix(i, j, x = x, symmetric = TRUE)) ## 10 x 10 "dsCMatrix"[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12366--12366 []\T1/pcr/m/n/9 (tA <- sparseMatrix(i, j, x = x, triangular= TRUE)) ## 10 x 10 "dtCMatrix"[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12371--12371 []\T1/pcr/m/n/9 (AA <- sparseMatrix(c(1,3:8), c(2,9,6:10), x = 7 * (1:7), dims = c(10,20)))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12374--12374 []\T1/pcr/m/n/9 ## i, j and x can be in an arbitrary order, as long as they ar e consistent[] [2567] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12397--12397 []\T1/pcr/m/n/9 ## pointer vectors can be used, and the (i,x) slots are sorted if necessary:[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12398--12398 []\T1/pcr/m/n/9 m <- sparseMatrix(i = c(3,1, 3:2, 2:1), p= c(0:2, 4,4,6), x = 1:6, dimnames = dn)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12424--12424 []\T1/pcr/m/n/9 ## pointers example in converting from other sparse matrix rep resentations.[] Overfull \hbox (47.58038pt too wide) in paragraph at lines 12427--12427 [] \T1/pcr/m/n/9 nzchar(dfil <- system.file("extdata", "rua_32_ax.rua", pack age = "SparseM"))) {[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12429--12429 [] \T1/pcr/m/n/9 XX <- sparseMatrix(j = X@ja, p = X@ia - 1L, x = X@ra, dims = X@dimension)[] [2568] Underfull \hbox (badness 6842) in paragraph at lines 12519--12522 []\T1/pcr/m/n/10 (x = "sparseMatrix", logarithm=TRUE)[]\T1/ptm/m/n/10 : [][][]\ T1/pcr/m/n/10 determinant[][][]() []\T1/ptm/m/n/10 meth-ods Underfull \hbox (badness 10000) in paragraph at lines 12554--12558 [][][]\T1/pcr/m/n/10 sparseMatrix[][][][]\T1/ptm/m/n/10 , and its ref-er-ences, such as [][][]\T1/pcr/m/n/10 xtabs[][][](*, sparse=TRUE)[]\T1/ptm/m/n/10 , or [2569] [2570] Underfull \hbox (badness 2961) in paragraph at lines 12738--12741 []\T1/pcr/m/n/10 signature(from = "sparseQR", logarithm = "logical")[]\T1/ptm/m /n/10 : com- [2571] Underfull \hbox (badness 3229) in paragraph at lines 12816--12820 []\T1/ptm/m/n/10 The many aux-il-iary func-tions for QR fac-tor-iza-tions: [][] []\T1/pcr/m/n/10 qr.Q[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.R[][][][] \T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qr.X[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 qr.coef[][][][]\T1/ptm/m/n/10 , [2572] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12856--12856 []\T1/pcr/m/n/9 ae1 <- function(a, b, ...) all.equal(as(a, "matrix"), as(b, "m atrix"), ...)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12864--12864 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(m, m), Dimnames = c(dn[1L ], list(NULL)),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 12867--12867 [] \T1/pcr/m/n/9 new("pMatrix", Dim = c(n, n), Dimnames = c(list( NULL), dn[2L]),[] Underfull \vbox (badness 10000) has occurred while \output is active [2573] Overfull \hbox (42.18039pt too wide) in paragraph at lines 12886--12886 [] \T1/pcr/m/n/9 ae2(qrc <- qr.coef (qr.A, b), with(e.qr.A, solve(R1 %*% P 2., t(qrQ)) %*% b))[] Underfull \hbox (badness 5036) in paragraph at lines 12921--12923 []\T1/ptm/m/n/10 vector of the non zero en-tries; may be miss-ing in which case a [2574] Underfull \hbox (badness 2970) in paragraph at lines 13044--13050 []\T1/ptm/m/n/10 Sparse Vec-tor Classes: The vir-tual mother class []\T1/pcr/m/ n/10 "sparseVector" []\T1/ptm/m/n/10 has the five ac- Underfull \hbox (badness 3679) in paragraph at lines 13044--13050 \T1/ptm/m/n/10 tual daugh-ter classes []\T1/pcr/m/n/10 "dsparseVector"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "isparseVector"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 " lsparseVector"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 13089--13092 []\T1/pcr/m/n/10 signature(x = "sparseVector", mode = "character") []\T1/ptm/m/ n/10 co-erces sparse [2575] Underfull \hbox (badness 10000) in paragraph at lines 13123--13128 []\T1/pcr/m/n/10 (x = "nsparseVector")[]\T1/ptm/m/n/10 : re-turn [][][]\T1/pcr/ m/n/10 logical[][][] []\T1/ptm/m/n/10 or Underfull \hbox (badness 10000) in paragraph at lines 13141--13143 [][][]\T1/pcr/m/n/10 sparseVector[][][]() []\T1/ptm/m/n/10 for friendly con-str uc-tion of sparse vec-tors (apart from []\T1/pcr/m/n/10 as(*, [2576] Underfull \vbox (badness 10000) has occurred while \output is active [2577] Overfull \hbox (24.78088pt too wide) in paragraph at lines 13237--13237 []\T1/pcr/m/n/10 spMatrix(nrow, ncol, i = integer(0L), j = integer(0L), x = do uble(0L)) Underfull \hbox (badness 2310) in paragraph at lines 13264--13270 [][][]\T1/pcr/m/n/10 Matrix[][][](*, sparse=TRUE) []\T1/ptm/m/n/10 for the more usual con-struc-tor of such ma-tri-ces. Then, [2578] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[<.Rdash. }) has been already used, duplicate ignored \relax l.13316 ...\Rdash{}}{subassign-methods}{[<.Rdash.} Underfull \hbox (badness 6910) in paragraph at lines 13403--13405 []\T1/ptm/m/n/10 is cur-rently a sim-ple fall-back [2579] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.[}) has b een already used, duplicate ignored \relax l.13450 \aliasA{[}{subscript-methods}{[} [2580] Underfull \hbox (badness 2591) in paragraph at lines 13585--13590 \T1/ptm/m/n/10 Classes [][][]\T1/pcr/m/n/10 triangularMatrix[][][][]\T1/ptm/m/n /10 , and, e.g., [][][]\T1/pcr/m/n/10 dsyMatrix[][][] []\T1/ptm/m/n/10 for nu-m eric \T1/ptm/m/it/10 dense \T1/ptm/m/n/10 ma-tri-ces, or [2581] Underfull \hbox (badness 2057) in paragraph at lines 13661--13663 []\T1/ptm/m/n/10 These are generic func-tions with sev-eral meth-ods for dif-fe r-ent ma-trix classes, use e.g., Underfull \hbox (badness 6396) in paragraph at lines 13670--13674 []\T1/pcr/m/n/10 symmpart(x) []\T1/ptm/m/n/10 re-turns a sym-met-ric ma-trix, i n-her-it-ing from [][][]\T1/pcr/m/n/10 symmetricMatrix[][][] []\T1/ptm/m/n/10 o r [2582] Underfull \hbox (badness 7722) in paragraph at lines 13675--13680 []\T1/pcr/m/n/10 skewpart(x) []\T1/ptm/m/n/10 re-turns a skew-symmetric ma-trix , in-her-it-ing from [][][]\T1/pcr/m/n/10 generalMatrix[][][][]\T1/ptm/m/n/10 , [2583] Underfull \hbox (badness 6641) in paragraph at lines 13752--13755 []\T1/ptm/m/n/10 Currently, [][][]\T1/pcr/m/n/10 Schur[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 isSymmetric[][][] []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 as () []\T1/ptm/m/n/10 (i.e. [][][]\T1/pcr/m/n/10 coerce[][][][]\T1/ptm/m/n/10 ) h ave meth-ods with Underfull \hbox (badness 5133) in paragraph at lines 13788--13792 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 "TsparseMatrix" []\T1/ptm/m/n/10 class is the vir-tual class of all sparse ma-tri-ces coded in Underfull \hbox (badness 2818) in paragraph at lines 13788--13792 \T1/ptm/m/n/10 triplet form. Since it is a vir-tual class, no ob-jects may be c re-ated from it. See [2584] [2585] Underfull \hbox (badness 1668) in paragraph at lines 13915--13918 [][][]\T1/pcr/m/n/10 pack[][][] []\T1/ptm/m/n/10 and [][][]\T1/pcr/m/n/10 unpac k[][][][]\T1/ptm/m/n/10 ; its vir-tual "com-ple-ment" []\T1/pcr/m/n/10 "[][]pac kedMatrix[][][]"[]\T1/ptm/m/n/10 ; its proper sub-classes [2586] Underfull \hbox (badness 10000) in paragraph at lines 14026--14032 []\T1/ptm/m/n/10 GAL lat-tice file `\T1/pcr/m/n/10 usc_q.GAL\T1/ptm/m/n/10 ' (r e-trieved in 2008 from [2587] [2588] [2589]) (./boot-pkg.tex [2590] Chapter 18. [2591] [2592] [2593] [2594] [2595] [2596] [2597] Overfull \hbox (12.78088pt too wide) in paragraph at lines 532--532 []\T1/pcr/m/n/10 boot(data, statistic, R, sim = "ordinary", stype = c("i", "f" , "w"), [2598] Underfull \hbox (badness 1325) in paragraph at lines 570--577 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sim-u-la-tion r e-quired. Pos-si-ble Underfull \hbox (badness 1275) in paragraph at lines 585--590 []\T1/ptm/m/n/10 An in-te-ger vec-tor or fac-tor spec-i-fy-ing the strata for m ulti-sample prob- [2599] [2600] [2601] Underfull \hbox (badness 1881) in paragraph at lines 826--828 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 6493) in paragraph at lines 853--857 [][][]\T1/pcr/m/n/10 boot.array[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 bo ot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 censboot[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 empinf[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 j ack.after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 tilt.boot[][][][]\T 1/ptm/m/n/10 , [2602] Overfull \hbox (4.38043pt too wide) in paragraph at lines 887--887 []\T1/pcr/m/n/9 nuke.lm <- glm(log(cost) ~ date+log(cap)+ne+ct+log(cum.n)+pt, data = nuke)[] Underfull \vbox (badness 10000) has occurred while \output is active [2603] [2604] [2605] Underfull \hbox (badness 1496) in paragraph at lines 1084--1093 []\T1/ptm/m/n/10 If sup-plied, a value to be used as an es-ti-mate of the vari- ance of the Underfull \hbox (badness 2005) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 statis-tic for the nor-mal ap-prox-i-ma-tion and stu-den-tized i n-ter-vals. If it Underfull \hbox (badness 2343) in paragraph at lines 1084--1093 \T1/ptm/m/n/10 is not sup-plied and []\T1/pcr/m/n/10 length(index) []\T1/ptm/m/ n/10 is 2 then []\T1/pcr/m/n/10 var.t0 []\T1/ptm/m/n/10 de-faults to Underfull \hbox (badness 2150) in paragraph at lines 1105--1111 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est. The de-fa ult value is [2606] [2607] [2608] [2609] Underfull \hbox (badness 1571) in paragraph at lines 1445--1447 []\T1/ptm/m/n/10 Rawlings, J.O. (1988) \T1/ptm/m/it/10 Ap-plied Re-gres-sion An al-y-sis\T1/ptm/m/n/10 . Wadsworth and Brooks/Cole Statis- [2610] [2611] [2612] [2613] [2614] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1738--1738 []\T1/pcr/m/n/10 censboot(data, statistic, R, F.surv, G.surv, strata = matrix( 1,n,2), [2615] [2616] [2617] Underfull \vbox (badness 10000) has occurred while \output is active [2618] Overfull \hbox (31.3804pt too wide) in paragraph at lines 2013--2013 []\T1/pcr/m/n/9 mel.cox <- coxph(Surv(time, status == 1) ~ ns(thickness, df=4) + strata(ulcer),[] [2619] Underfull \hbox (badness 6268) in paragraph at lines 2084--2086 []\T1/ptm/m/n/10 The length of time (in months) that the res-i-dent spent at Ch an-ning House. [2620] [2621] [2622] Underfull \hbox (badness 1565) in paragraph at lines 2338--2343 []\T1/ptm/m/n/10 The ob-served value of the statis-tic of in-ter-est on the ori g-i-nal data set [2623] Underfull \hbox (badness 4595) in paragraph at lines 2363--2368 \T1/ptm/m/n/10 are passed un-changed ev-ery time []\T1/pcr/m/n/10 boot.out$stat istic []\T1/ptm/m/n/10 is called. Underfull \hbox (badness 1881) in paragraph at lines 2432--2434 []\T1/ptm/m/n/10 Davison, A.C., Hink-ley, D.V. and Schecht-man, E. (1986) Ef-fi -cient boot-strap sim-u-la-tion. Underfull \hbox (badness 2057) in paragraph at lines 2440--2441 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 empinf[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 k3.linear[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 linear.approx[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 saddle.distn[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.spline[][][][] \T1/ptm/m/n/10 , [2624] [2625] Underfull \hbox (badness 1077) in paragraph at lines 2536--2540 []\T1/ptm/m/n/10 The un-bi-ased es-ti-ma-tor uses a mul-ti-plier of []\T1/pcr/m /n/10 n/((n-1)*(n-2)) []\T1/ptm/m/n/10 where []\T1/pcr/m/n/10 n []\T1/ptm/m/n/1 0 is the sam-ple Underfull \hbox (badness 1112) in paragraph at lines 2536--2540 \T1/ptm/m/n/10 size, if []\T1/pcr/m/n/10 unbiased []\T1/ptm/m/n/10 is []\T1/pcr /m/n/10 FALSE []\T1/ptm/m/n/10 then a mul-ti-plier of []\T1/pcr/m/n/10 1/n []\T 1/ptm/m/n/10 is used. This is mul-ti-plied by [2626] [2627] [2628] [2629] [2630] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2895--2895 []\T1/pcr/m/n/10 EEF.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25, Overfull \hbox (18.78088pt too wide) in paragraph at lines 2897--2897 []\T1/pcr/m/n/10 EL.profile(y, tmin = min(y) + 0.1, tmax = max(y) - 0.1, n.t = 25,[] [2631] [2632] [2633] Underfull \hbox (badness 3861) in paragraph at lines 3105--3108 [][][]\T1/pcr/m/n/10 boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.arr ay[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 boot.ci[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 control[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 jack .after.boot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 linear.approx[][][][]\ T1/ptm/m/n/10 , [2634] Overfull \hbox (36.78088pt too wide) in paragraph at lines 3158--3158 []\T1/pcr/m/n/10 envelope(boot.out = NULL, mat = NULL, level = 0.95, index = 1 :ncol(mat)) [2635] [2636] [2637] Overfull \hbox (9.78043pt too wide) in paragraph at lines 3378--3378 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling [2638] [2639] [2640] [2641] [2642] [2643] [2644] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3838--3838 [] \T1/pcr/m/n/10 t = boot.out$t[, index], w = NULL, def = TRUE, q = NULL)[] [2645] [2646] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3977--3977 []\T1/pcr/m/n/9 grav.p <- imp.prob(grav.tilt.boot, w = grav.w, index = 3, t0 = grav.z0[3])[] [2647] [2648] [2649] [2650] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4259--4259 []\T1/pcr/m/n/9 # To draw the jackknife-after-bootstrap plot for the head siz e data as in [2651] [2652] Underfull \hbox (badness 10000) in paragraph at lines 4362--4364 []\T1/ptm/m/n/10 The in-dex of the vari-able of in-ter-est within the out-put o f Underfull \hbox (badness 1430) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 If []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is sup-plied but nei-the r []\T1/pcr/m/n/10 t []\T1/ptm/m/n/10 nor []\T1/pcr/m/n/10 L []\T1/ptm/m/n/10 a re sup-plied then []\T1/pcr/m/n/10 t0 []\T1/ptm/m/n/10 is set to [2653] [2654] [2655] [2656] [2657] [2658] [2659] [2660] [2661] Underfull \hbox (badness 3000) in paragraph at lines 4959--4962 []\T1/ptm/m/n/10 The in-dex of the statis-tic of in-ter-est within the out-put of a call to [2662] [2663] [2664] [2665] Underfull \hbox (badness 2293) in paragraph at lines 5238--5241 []\T1/ptm/m/n/10 An in-te-ger giv-ing the num-ber of classes to be used in the boot-strap Underfull \hbox (badness 1668) in paragraph at lines 5238--5241 \T1/ptm/m/n/10 his-togram. The de-fault is the in-te-ger be-tween 10 and 100 cl os-est to [2666] Overfull \hbox (20.58041pt too wide) in paragraph at lines 5317--5317 []\T1/pcr/m/n/9 grav.boot <- boot(grav1, grav.fun, R = 499, stype = "w", strat a = grav1[, 2])[] [2667] [2668] [2669] [2670] [2671] [2672] [2673] [2674] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5866--5866 []\T1/pcr/m/n/9 city.sp1$spa[1] <- jacobian(city, 1.25, city.sp1$zeta.hat) * c ity.sp1$spa[1][] [2675] Underfull \hbox (badness 1127) in paragraph at lines 5988--6006 []\T1/ptm/m/n/10 etc. un-til a point is found with a cdf ap-prox-i-ma-tion less than []\T1/pcr/m/n/10 min(alpha)/10[]\T1/ptm/m/n/10 , then [2676] Underfull \hbox (badness 2837) in paragraph at lines 6021--6024 []\T1/ptm/m/n/10 The re-turned value is an ob-ject of class []\T1/pcr/m/n/10 "s addle.distn"[]\T1/ptm/m/n/10 . See the help file for [2677] [2678] [2679] [2680] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6306--6306 []\T1/pcr/m/n/9 # This example is taken from Exercise 7.5 of Gill, Murray and Wright (1991). [2681] [2682] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6495--6495 []\T1/pcr/m/n/9 # Example 9.8 of Davison and Hinkley (1997) requires tilting t he resampling Overfull \hbox (20.58041pt too wide) in paragraph at lines 6497--6497 []\T1/pcr/m/n/9 # value of the test statistic 1.84. In the book exponential t ilting was used[] [2683] [2684] [2685] Underfull \hbox (badness 1596) in paragraph at lines 6742--6746 []\T1/ptm/m/n/10 A char-ac-ter string in-di-cat-ing the type of sec-ond ar-gu-m ent ex-pected by [2686] [2687] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6902--6902 [] \T1/pcr/m/n/9 stype = "i", sim = "balanced", alpha = c(0.05, 0.95),[] [2688] [2689] [2690] [2691] [2692] [2693] [2694] [2695]) (./class-pkg.tex [2696] Chapter 19. [2697] [2698] [2699] [2700] [2701] [2702] [2703] [2704] [2705] [2706] [2707] [2708] [2709] [2710] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1008--1008 [] \T1/pcr/m/n/9 alpha = list(seq(0.05, 0, length.out = 1e4), seq(0.02, 0, length.out = 1e5)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1009--1009 [] \T1/pcr/m/n/9 radii = list(seq(8, 1, length.out = 1e4), seq(4, 1, length .out = 1e5)))[] [2711] [2712]) (./cluster-pkg.tex Chapter 20. [2713] [2714] [2715] Overfull \hbox (42.18039pt too wide) in paragraph at lines 253--253 [] \T1/pcr/m/n/9 all.equal(a.wgt [iC], agnes(d.vr, method="flexible", par.met hod = 0.5)[iC]) ,[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 254--254 [] \T1/pcr/m/n/9 all.equal(a.sing[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, -.5))[iC]),[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 255--255 [] \T1/pcr/m/n/9 all.equal(a.comp[iC], agnes(d.vr, method="flex", par.method= c(.5,.5,0, +.5))[iC]))[] [2716] [2717] [2718] [2719] Overfull \hbox (18.78088pt too wide) in paragraph at lines 519--519 [] \T1/pcr/m/n/10 col = c(2, 0), border = 0, axes = TRUE, frame.plot = axes,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 523--523 [] \T1/pcr/m/n/10 yaxRight = fromLeft, y.mar = 2.4 + max.strlen/2.5, ...)[] [2720] [2721] Overfull \hbox (66.78088pt too wide) in paragraph at lines 638--638 [] \T1/pcr/m/n/10 keep.data = medoids.x, rngR = FALSE, pamLike = FALSE, c orrect.d = TRUE)[] [2722] [2723] [2724] Underfull \hbox (badness 2941) in paragraph at lines 792--795 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 clara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\ T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 833--833 [] \T1/pcr/m/n/9 cl[,i] <- clara(xclara, nCl, medoids.x = FALSE, rngR = TRUE )$clustering[] [2725] Overfull \hbox (9.78043pt too wide) in paragraph at lines 835--835 []\T1/pcr/m/n/9 ## those that are not always in same cluster (5 out of 3000 fo r this seed):[] Underfull \hbox (badness 10000) in paragraph at lines 882--884 []\T1/ptm/m/n/10 list with sil-hou-ette width in-for-ma-tion for the best sam-p le, see [2726] Overfull \hbox (24.78088pt too wide) in paragraph at lines 947--947 [] \T1/pcr/m/n/10 arrowArgs = list(col="red3", length=1/16, angle=90, code =3), ...)[] [2727] Underfull \hbox (badness 4872) in paragraph at lines 992--994 []\T1/ptm/m/n/10 simply cor-re-sponds to the global max-i-mum, i.e., is Underfull \hbox (badness 1342) in paragraph at lines 1006--1010 []\T1/ptm/m/n/10 This, the de-fault, has been pro-posed by Mar-tin Maech-ler in 2012, [2728] Underfull \hbox (badness 2503) in paragraph at lines 1092--1096 []\T1/ptm/m/n/10 Per Broberg (2006). SAGx: Sta-tis-ti-cal Anal-y-sis of the Gen eChip. R pack-age ver- [2729] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1118--1118 [] \T1/pcr/m/n/9 sapply(mets, function(M) maxSE(fk, sk, method = M, SE. factor = SEf)))[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 1135--1135 []\T1/pcr/m/n/9 ## You can manually set it before running this : doExtras < - TRUE # or FALSE[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1144--1144 [] \T1/pcr/m/n/9 gskmn <- clusGap(x, FUNcluster = kmeans, nstart = 20, K.max = 8, B = 60)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1146--1146 [] \T1/pcr/m/n/9 plot(gskmn, main = "clusGap(., FUNcluster = kmeans, n.start= 20, B= 60)")[] Underfull \vbox (badness 10000) has occurred while \output is active [2730] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1173--1173 []\T1/pcr/m/n/9 plot(gsP.Z, main = "clusGap() ==> k = 1 clust er is optimal")[] Underfull \hbox (badness 4144) in paragraph at lines 1205--1209 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 nor a []\T1/pcr/m/n/10 data []\T1/ptm/m/n/10 com-po-nent, e.g., for [2731] Overfull \hbox (60.78088pt too wide) in paragraph at lines 1281--1281 [] \T1/pcr/m/n/10 col.clus = if(color) c(2, 4, 6, 3) else 5, cex = 1, cex.txt = cex,[] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1287--1287 [] \T1/pcr/m/n/10 round(100 * var.dec, digits = 2), "% of the poin t variability."),[] [2732] [2733] [2734] Underfull \hbox (badness 10000) in paragraph at lines 1474--1477 Underfull \hbox (badness 10000) in paragraph at lines 1488--1492 [][][]\T1/pcr/m/n/10 princomp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cmds cale[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 daisy[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cov.mve[][][ ][]\T1/ptm/m/n/10 , Overfull \hbox (31.3804pt too wide) in paragraph at lines 1512--1512 []\T1/pcr/m/n/9 clusplot(pamv, col.p = votes.clus, labels = 4)# color points a nd label ellipses[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1522--1522 [] \T1/pcr/m/n/9 clusplot(votes.diss, votes.clus, diss = TRUE, labels = 5)# i dent. only points[] [2735] Underfull \hbox (badness 5741) in paragraph at lines 1562--1565 []\T1/pcr/m/n/10 coefHier() []\T1/ptm/m/n/10 di-rectly in-ter-faces to the un-d er-ly-ing C code, and ``proves'' that \T1/ptm/m/it/10 only [2736] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1631--1631 [] \T1/pcr/m/n/10 warnBin = warnType, warnAsym = warnType, warnConst = wa rnType,[] [2737] Underfull \hbox (badness 1552) in paragraph at lines 1680--1682 []\T1/ptm/b/n/10 A\T1/ptm/m/n/10 symmetric bi-nary vari-able, aka []\T1/pcr/m/n /10 "A" []\T1/ptm/m/n/10 in re-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , se e Underfull \hbox (badness 1629) in paragraph at lines 1694--1698 []\T1/ptm/b/n/10 I\T1/ptm/m/n/10 nterval scaled -- the \T1/ptm/b/n/10 de-fault \T1/ptm/m/n/10 for all nu-meric Underfull \hbox (badness 3746) in paragraph at lines 1694--1698 \T1/ptm/m/n/10 (incl []\T1/pcr/m/n/10 integer[]\T1/ptm/m/n/10 ) columns of []\T 1/pcr/m/n/10 x[]\T1/ptm/m/n/10 , aka []\T1/pcr/m/n/10 "I" []\T1/ptm/m/n/10 in r e-sult []\T1/pcr/m/n/10 Types[]\T1/ptm/m/n/10 , see [2738] Underfull \hbox (badness 1540) in paragraph at lines 1769--1777 \T1/ptm/m/n/10 In other words, $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 is a weigh ted mean of $\OML/cmm/m/it/10 d[]$ \T1/ptm/m/n/10 with weights $\OML/cmm/m/it/1 0 w[]^^N[]$\T1/ptm/m/n/10 , where $\OML/cmm/m/it/10 w[]$[]\T1/pcr/m/n/10 = [2739] Overfull \hbox (25.98041pt too wide) in paragraph at lines 1856--1856 []\T1/pcr/m/n/9 ## Example 2 in reference, extended --- different ways of "m ixed" / "gower":[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1860--1860 []\T1/pcr/m/n/9 summary(d0 <- daisy(flower)) # -> the first 3 {0,1} treate d as *N*ominal[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 1861--1861 []\T1/pcr/m/n/9 summary(dS123 <- daisy(flower, type = list(symm = 1:3))) # fi rst 3 treated as *S*ymmetric[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1862--1862 []\T1/pcr/m/n/9 stopifnot(dS123 == d0) # i.e., *S*ymmetric <==> *N*ominal {fo r 2-level factor}[] Overfull \hbox (106.98032pt too wide) in paragraph at lines 1866--1866 []\T1/pcr/m/n/9 summary(dA123 <- daisy(flowerN)) # .. all 3 logicals treated * A*symmetric binary (w/ warning)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1868--1868 []\T1/pcr/m/n/9 summary(dA13 <- daisy(flower, type = list(asymm = c(1, 3), ord ratio = 7)))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1875--1875 []\T1/pcr/m/n/9 Nflow[,1:3] <- lapply(flower[,1:3], function(f) as.integer(as. character(f)))[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1876--1876 []\T1/pcr/m/n/9 summary(dN <- daisy(Nflow)) # w/ warning: treated binary .. 1: 3 as interval[] Overfull \hbox (117.7803pt too wide) in paragraph at lines 1877--1877 []\T1/pcr/m/n/9 ## Still, using Euclidean/Manhattan distance for {0-1} *is* id entical to treating them as "N" :[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 1893--1893 []\T1/pcr/m/n/10 diana(x, diss = inherits(x, "dist"), metric = "euclidean", st and = FALSE, [2740] [2741] [2742] [2743] [2744] Underfull \hbox (badness 10000) in paragraph at lines 2212--2215 Underfull \hbox (badness 3179) in paragraph at lines 2223--2229 [][][]\T1/pcr/m/n/10 predict.ellipsoid[][][] []\T1/ptm/m/n/10 which is also the [][][]\T1/pcr/m/n/10 predict[][][] []\T1/ptm/m/n/10 method for []\T1/pcr/m/n/1 0 ellipsoid []\T1/ptm/m/n/10 ob-jects. [2745] [2746] Underfull \hbox (badness 10000) in paragraph at lines 2380--2383 [][][]\T1/pcr/m/n/10 agnes[][][] []\T1/ptm/m/n/10 for back-ground and ref-er-en ces; [][][]\T1/pcr/m/n/10 fanny.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2747] Underfull \hbox (badness 1292) in paragraph at lines 2448--2451 []\T1/ptm/m/n/10 named vec-tor with []\T1/pcr/m/n/10 iterations[]\T1/ptm/m/n/10 , the num-ber of it-er-a-tions needed and [2748] Underfull \hbox (badness 6675) in paragraph at lines 2457--2459 []\T1/ptm/m/n/10 list with sil-hou-ette in-for-ma-tion of the near-est crisp cl us-ter-ing, see Underfull \hbox (badness 10000) in paragraph at lines 2480--2483 [][][]\T1/pcr/m/n/10 fanny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.f anny[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 dissimilarity.object[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [2749] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2555--2555 [] \T1/pcr/m/n/9 "4" = "red", "5" = "blue")[levels(f lowerN$color)][] Overfull \hbox (90.78033pt too wide) in paragraph at lines 2556--2556 []\T1/pcr/m/n/9 levels(flowerN$soil) <- c("1" = "dry", "2" = "normal", "3" = "wet")[levels(flowerN$soil)][] [2750] Overfull \hbox (48.78088pt too wide) in paragraph at lines 2619--2619 []\T1/pcr/m/n/10 medoids(x, clustering, diss = inherits(x, "dist"), USE.NAMES = FALSE, ...) [2751] Overfull \hbox (69.18036pt too wide) in paragraph at lines 2666--2666 [] \T1/pcr/m/n/9 stopifnot(length(cl.k) == nrow(votes.repub), 1 <= cl.k, cl.k <= k, table(cl.k) >= 2)[] [2752] Overfull \hbox (15.18042pt too wide) in paragraph at lines 2771--2771 []\T1/pcr/m/n/9 ## One place to see if/how error messages are *translated* (to \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 de\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 / \TS1/pcr/m/n/ 9 '\T1/pcr/m/n/9 pl\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ):[] [2753] Overfull \hbox (42.78088pt too wide) in paragraph at lines 2850--2850 [] \T1/pcr/m/n/10 variant = c("original", "o_1", "o_2", "f_3", "f_4", "f_5" , "faster"),[] [2754] [2755] [2756] [2757] Overfull \hbox (85.38034pt too wide) in paragraph at lines 3078--3078 []\T1/pcr/m/n/9 ## use obs. 1 & 16 as starting medoids -- same result (for see d above, *and* typically) :[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3080--3080 []\T1/pcr/m/n/9 ## no _build_ *and* no _swap_ phase: just cluster all obs. aro und (1, 16):[] Overfull \hbox (63.78036pt too wide) in paragraph at lines 3083--3083 []\T1/pcr/m/n/9 keep_nms <- setdiff(names(pamx), c("call", "objective"))# .$ob jective["build"] differ[] [2758] Overfull \hbox (20.58041pt too wide) in paragraph at lines 3187--3187 []\T1/pcr/m/n/9 axis(1, k.best, paste("best",k.best,sep="\n"), col = "red", co l.axis = "red")[] [2759] [2760] [2761] Overfull \hbox (78.78088pt too wide) in paragraph at lines 3381--3381 [] \T1/pcr/m/n/10 sub = paste("Agglomerative Coefficient = ",round(x $ac, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3382--3382 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2762] Underfull \hbox (badness 10000) in paragraph at lines 3449--3452 []\T1/ptm/m/n/10 For the den-dro-gram, more flex-i-bil-ity than via []\T1/pcr/m /n/10 pltree() []\T1/ptm/m/n/10 is pro-vided by []\T1/pcr/m/n/10 dg <- [2763] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3499--3499 [] \T1/pcr/m/n/10 sub = paste("Divisive Coefficient = ", round(x$dc, digits = 2)),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 3500--3500 [] \T1/pcr/m/n/10 adj = 0, nmax.lab = 35, max.strlen = 5, xax.pretty = TRUE, ...)[] [2764] [2765] [2766] Underfull \hbox (badness 10000) in paragraph at lines 3685--3688 []\T1/ptm/m/n/10 when []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 does not have a []\T1 /pcr/m/n/10 diss []\T1/ptm/m/n/10 com-po-nent as for [][][]\T1/pcr/m/n/10 pam[] [][](*, Underfull \hbox (badness 1448) in paragraph at lines 3685--3688 \T1/pcr/m/n/10 keep.diss=FALSE)[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 dist []\T1/p tm/m/n/10 must be the dis-sim-i-lar-ity if a clus-plot is [2767] Underfull \hbox (badness 10000) in paragraph at lines 3748--3753 [][][]\T1/pcr/m/n/10 partition.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 clusplot.partition[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 clusplot.de fault[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pam[][][][]\T1/ptm/m/n/10 , [2768] Underfull \hbox (badness 1748) in paragraph at lines 3810--3815 \T1/ptm/m/n/10 dis-patches to [][][]\T1/pcr/m/n/10 plot.hclust[][][](..)[]\T1/p tm/m/n/10 . If more flex-i-ble plots are needed, con-sider []\T1/pcr/m/n/10 xx <- Underfull \hbox (badness 6268) in paragraph at lines 3822--3825 [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 agnes.o bject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 diana.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/1 0 hclust[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 par[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.agnes[][][][]\T1/ptm/m/n/10 , [2769] Underfull \hbox (badness 10000) in paragraph at lines 3883--3885 []\T1/ptm/m/n/10 Available as `\T1/pcr/m/n/10 pluton.dat\T1/ptm/m/n/10 ' from t he archive of the Uni-ver-sity of Antwer-pen, [2770] [2771] Underfull \hbox (badness 10000) in paragraph at lines 4002--4005 [][][]\T1/pcr/m/n/10 summary.agnes[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 agnes[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ag nes.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2772] Underfull \hbox (badness 10000) in paragraph at lines 4033--4036 [][][]\T1/pcr/m/n/10 summary.clara[][][] []\T1/ptm/m/n/10 pro-duc-ing more out- put; [][][]\T1/pcr/m/n/10 clara[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cl ara.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print[][][][]\T1/ptm/m/ n/10 , [2773] Overfull \hbox (36.78088pt too wide) in paragraph at lines 4086--4086 [] \T1/pcr/m/n/10 digits = getOption("digits"), justify = "none", right = TRUE, ...)[] Underfull \hbox (badness 2035) in paragraph at lines 4097--4099 []\T1/ptm/m/n/10 a []\T1/pcr/m/n/10 dissimilarity []\T1/ptm/m/n/10 ob-ject or a []\T1/pcr/m/n/10 summary.dissimilarity []\T1/ptm/m/n/10 one for [2774] [2775] [2776] Overfull \hbox (54.78088pt too wide) in paragraph at lines 4290--4290 [] \T1/pcr/m/n/10 main = NULL, sub = NULL, xlab = expression("Silhouette w idth "* s[i]),[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 4292--4292 [] \T1/pcr/m/n/10 cex.names = par("cex.axis"), do.n.k = TRUE, do.clus.stat = TRUE, ...)[] [2777] [2778] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4434--4434 []\T1/pcr/m/n/9 plot(si, col = c("red", "green", "blue", "purple"))# with clus ter-wise coloring[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4443--4443 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4445--4445 [] \T1/pcr/m/n/9 outer = TRUE, font = par("font.main"), cex = par("cex.ma in")); frame()[] Overfull \hbox (42.18039pt too wide) in paragraph at lines 4448--4448 []\T1/pcr/m/n/9 c6 <- c("tomato", "forest green", "dark blue", "purple2", "gol denrod4", "gray20")[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 4450--4450 [] \T1/pcr/m/n/9 plot(silhouette(pam(ruspini, k=k)), main = paste("k = ",k), do.n.k=FALSE,[] [2779] Overfull \hbox (31.3804pt too wide) in paragraph at lines 4457--4457 []\T1/pcr/m/n/9 str(xc1k <- xclara[ sample(nrow(xclara), size = 1000) ,]) # ro wnames == indices[] [2780] [2781] [2782] [2783] [2784] [2785] Underfull \hbox (badness 10000) in paragraph at lines 4828--4834 []\T1/ptm/m/n/10 Our ver-sion of the []\T1/pcr/m/n/10 xclara []\T1/ptm/m/n/10 i s slightly more rounded than the one from Underfull \hbox (badness 10000) in paragraph at lines 4844--4846 []\T1/ptm/m/n/10 Sample data set ac-com-pa-ny-ing the ref-er-ence be-low (file `\T1/pcr/m/n/10 xclara.dat\T1/ptm/m/n/10 ' in side Overfull \hbox (52.98038pt too wide) in paragraph at lines 4857--4857 []\T1/pcr/m/n/9 ## Visualization: Assuming groups are defined as {1:1000}, {10 01:2000}, {2001:3000} Overfull \hbox (9.78043pt too wide) in paragraph at lines 4859--4859 []\T1/pcr/m/n/9 p.ID <- c(78, 1411, 2535) ## PAM\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 s medoid indices == pam(xclara, 3)$id.med[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4869--4869 [] \T1/pcr/m/n/9 ## We see 3 + 2 + 2 = 7 clear "outlier"s or "wrong group" o bservations:[] [2786] Overfull \hbox (20.58041pt too wide) in paragraph at lines 4873--4873 [] \T1/pcr/m/n/9 ## Apart from these, what are the robust ranges of indices? - - Robust range:[] [2787]) (./codetools-pkg.tex [2788] Chapter 21. Overfull \hbox (24.78088pt too wide) in paragraph at lines 16--16 [] \T1/pcr/m/n/10 suppressParamUnused = !all, suppressFundefMismatch = FALSE,[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17--17 [] \T1/pcr/m/n/10 suppressLocalUnused = FALSE, suppressNoLocalFun = !all,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 18--18 [] \T1/pcr/m/n/10 skipWith = FALSE, suppressUndefined = dfltSuppress Undefined,[] [2789] Underfull \hbox (badness 10000) in paragraph at lines 65--70 []\T1/pcr/m/n/10 checkUsageEnv []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 checkUsage Package []\T1/ptm/m/n/10 are con-ve-nience func-tions that ap-ply [2790] Overfull \hbox (18.78088pt too wide) in paragraph at lines 118--118 []\T1/pcr/m/n/10 makeConstantFolder(..., leaf, handler, call, exit, isLocal, f oldable,[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 121--121 []\T1/pcr/m/n/10 makeUsageCollector(fun, ..., name, enterLocal, enterGlobal, e nterInternal,[] [2791] [2792] [2793]) (./foreign-pkg.tex [2794] Chapter 22. Underfull \hbox (badness 10000) in paragraph at lines 33--37 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able as [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 33--37 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 33--37 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2795] Underfull \hbox (badness 1231) in paragraph at lines 67--70 []\T1/ptm/m/n/10 a char-ac-ter string with the name of the ARFF file to read fr om, or a [2796] [2797] Underfull \hbox (badness 3601) in paragraph at lines 234--242 []\T1/ptm/m/n/10 A data frame with at-tributes. These will in-clude []\T1/pcr/m /n/10 "datalabel"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "time.stamp"[]\T1/ptm/m/n/ 10 , [2798] Overfull \hbox (12.78088pt too wide) in paragraph at lines 292--292 []\T1/pcr/m/n/10 read.epiinfo(file, read.deleted = FALSE, guess.broken.dates = FALSE, [2799] [2800] [2801] Overfull \hbox (48.78088pt too wide) in paragraph at lines 458--458 [] \T1/pcr/m/n/10 trim_values = TRUE, reencode = NA, use.missings = t o.data.frame,[] [2802] Overfull \hbox (30.78088pt too wide) in paragraph at lines 459--459 [] \T1/pcr/m/n/10 sub = ".", add.undeclared.levels = c("sort", "appen d", "no"),[] Underfull \hbox (badness 2846) in paragraph at lines 502--511 []\T1/ptm/m/n/10 character: what to do with du-pli-cated value la-bels for dif- fer-ent lev- Underfull \hbox (badness 3746) in paragraph at lines 502--511 \T1/ptm/m/n/10 els. For []\T1/pcr/m/n/10 "append" []\T1/ptm/m/n/10 (the de-faul t), the first orig-i-nal value la-bel is Underfull \hbox (badness 2269) in paragraph at lines 502--511 \T1/ptm/m/n/10 kept while fur-ther du-pli-cated la-bels are re-named to []\T1/p cr/m/n/10 paste0(label, Underfull \hbox (badness 10000) in paragraph at lines 512--515 []\T1/ptm/m/n/10 character: the in-fix used for la-bels of fac-tor lev-els with du- Underfull \hbox (badness 10000) in paragraph at lines 512--515 \T1/ptm/m/n/10 pli-cated value la-bels in SPSS (de-fault []\T1/pcr/m/n/10 "_dup licated_"[]\T1/ptm/m/n/10 ) if [2803] Underfull \hbox (badness 10000) in paragraph at lines 546--554 []\T1/ptm/m/n/10 URL [][]$\T1/pcr/m/n/10 https : / / learn . microsoft . com / en-[]us / windows / win32 / intl / Underfull \hbox (badness 7613) in paragraph at lines 564--570 []\T1/ptm/m/n/10 There may be at-tributes []\T1/pcr/m/n/10 "label.table" []\T1/ ptm/m/n/10 and []\T1/pcr/m/n/10 "variable.labels"[]\T1/ptm/m/n/10 . At-tribute [2804] Overfull \hbox (20.58041pt too wide) in paragraph at lines 619--619 []\T1/pcr/m/n/9 ### hence may need some special treatment with appropriate arg ument settings.[] Overfull \hbox (112.38031pt too wide) in paragraph at lines 620--620 []\T1/pcr/m/n/9 ### Expect lots of warnings as value labels (corresponding to R factor labels) are uncomplete,[] [2805] Overfull \hbox (9.78043pt too wide) in paragraph at lines 653--653 []\T1/pcr/m/n/9 ## Long Strings (>255 chars) are imported in consecutive separ ate variables[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 657--657 []\T1/pcr/m/n/9 cat.long.string <- function(x, w=70) cat(paste(strwrap(x, widt h=w), "\n"))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 664--664 []\T1/pcr/m/n/9 long.string <- apply(x[,c("string_500", "STRIN0")], 1, paste, collapse="")[] [2806] [2807] Underfull \hbox (badness 10000) in paragraph at lines 808--809 Overfull \hbox (4.38043pt too wide) in paragraph at lines 818--818 []\T1/pcr/m/n/9 iris.s <- read.systat(system.file("files/Iris.syd", package="f oreign")[1])[] [2808] Underfull \hbox (badness 10000) in paragraph at lines 865--869 []\T1/ptm/m/n/10 SAS Tech-ni-cal Sup-port doc-u-ment TS-140: ``The Record Lay-o ut of a Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/ptm/m/n/10 Data Set in SAS Trans-port (XPORT) For-mat'' avail-able at [][]$ \T1/pcr/m/n/10 https : Underfull \hbox (badness 10000) in paragraph at lines 865--869 \T1/pcr/m/n/10 / / www . sas . com / content / dam / sasdam / documents / 20260 302 / Overfull \hbox (74.28088pt too wide) in paragraph at lines 865--869 \T1/pcr/m/n/10 record-[]layout-[]of-[]a-[]sas-[]version-[]5-[]or-[]6-[]data-[]s et-[]in-[]sas-[]transport-[]xport-[]format . [2809] Overfull \hbox (24.78088pt too wide) in paragraph at lines 896--896 [] \T1/pcr/m/n/10 data.restore(file, print = FALSE, verbose = FALSE, env = .G lobalEnv) [2810] Overfull \hbox (0.78088pt too wide) in paragraph at lines 960--960 []\T1/pcr/m/n/10 write.arff(x, file, eol = "\n", relation = deparse(substitute (x))) [2811] [2812] Underfull \hbox (badness 10000) in paragraph at lines 1072--1073 [][][]$\T1/pcr/m/n/10 https : / / www . clicketyclick . dk / databases / xbase / format / data _ types . Overfull \hbox (24.78088pt too wide) in paragraph at lines 1108--1108 [] \T1/pcr/m/n/10 convert.factors = c("labels", "string", "numeric", "codes"))[] [2813] [2814] Underfull \hbox (badness 10000) in paragraph at lines 1265--1271 []\T1/ptm/m/n/10 The work for this func-tion is done by []\T1/pcr/m/n/10 foreig n:::writeForeignStata[]\T1/ptm/m/n/10 , [2815] Underfull \hbox (badness 2088) in paragraph at lines 1291--1294 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 package="SPSS"[]\T1/ptm/m/n/10 , as a sid e ef-fect, the dec-i-mal in-di-ca-tor is al-ways set by []\T1/pcr/m/n/10 SET [2816]) (./lattice-pkg.tex Chapter 23. [2817] Underfull \hbox (badness 2073) in paragraph at lines 114--118 \T1/ptm/m/n/10 pro-vide a holis-tic in-tro-duc-tion to the Trel-lis paradigm: [ ][]$\T1/pcr/m/n/10 http : / / web . archive . org / Underfull \hbox (badness 10000) in paragraph at lines 114--118 \T1/pcr/m/n/10 web / 20081020164041 / http : / / cm . bell-[]labs . com / cm / ms / departments / sia / [2818] [2819] Overfull \hbox (12.78088pt too wide) in paragraph at lines 288--288 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 292--292 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .xyplot"),[] [2820] Overfull \hbox (42.78088pt too wide) in paragraph at lines 304--304 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defaul t.dotplot"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 314--314 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.barchart"),[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 325--325 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.stripplot"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 349--349 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2821] Overfull \hbox (30.78088pt too wide) in paragraph at lines 353--353 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .bwplot"),[] [2822] [2823] [2824] Underfull \hbox (badness 1221) in paragraph at lines 656--659 []\T1/ptm/m/n/10 A log-i-cal, or a list con-tain-ing com-po-nents to be used as ar-gu-ments to [2825] [2826] [2827] [2828] Underfull \hbox (badness 2005) in paragraph at lines 999--1011 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the un-used lev-els of fac-tors will be Underfull \hbox (badness 1199) in paragraph at lines 999--1011 \T1/ptm/m/n/10 some-times ap-pro-pri-ate to sup-press drop-ping to pre-serve a use-ful lay-out. [2829] [2830] Underfull \hbox (badness 1661) in paragraph at lines 1112--1118 []\T1/pcr/m/n/10 x []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 sho uld be num-bers be-tween 0 and 1, giv-ing co-or-di-nates [2831] Underfull \hbox (badness 1097) in paragraph at lines 1238--1240 []\T1/ptm/m/n/10 Logical flag, whether leg-end should have a [2832] Underfull \hbox (badness 1917) in paragraph at lines 1252--1253 []\T1/ptm/m/n/10 Space be-tween col-umn blocks, in ad-di-tion to [2833] [2834] Underfull \hbox (badness 1540) in paragraph at lines 1487--1493 []\T1/ptm/m/n/10 A list con-tain-ing pos-si-ble ar-gu-ments to [][][]\T1/pcr/m/ n/10 plot.trellis[][][][]\T1/ptm/m/n/10 , Underfull \vbox (badness 10000) has occurred while \output is active [2835] Underfull \hbox (badness 10000) in paragraph at lines 1574--1591 [][][]\T1/pcr/m/n/10 panel.dotplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.stripplot[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.superpose[] [][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 panel.loess[][][][]\T1/ptm/m/n/10 , [2836] [2837] Overfull \hbox (36.7804pt too wide) in paragraph at lines 1662--1662 [] \T1/pcr/m/n/9 text = list(lab = as.character(unique(Orchar dSprays$rowpos))),[] [2838] Underfull \hbox (badness 2012) in paragraph at lines 1716--1718 []\T1/ptm/m/n/10 additional ar-gu-ments passed to [][][]\T1/pcr/m/n/10 xyplot[] [][][]\T1/ptm/m/n/10 , which may pass them on to Underfull \hbox (badness 6808) in paragraph at lines 1746--1750 []\T1/ptm/m/n/10 graphical ar-gu-ments, which are pro-cessed and even-tu-ally p assed to Underfull \hbox (badness 10000) in paragraph at lines 1763--1766 []\T1/ptm/m/n/10 style set-tings be-yond the stan-dard []\T1/pcr/m/n/10 col[]\T 1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1 /ptm/m/n/10 , etc; see [2839] Underfull \hbox (badness 10000) in paragraph at lines 1815--1817 []\T1/ptm/m/n/10 Gabor Grothendieck, Achim Zeileis, Deep-ayan Sarkar and Fe-lix An-drews [2840] [2841] [2842] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2056--2056 [] \T1/pcr/m/n/10 auto.key = lattice.getOption("default.args")$auto .key,[] [2843] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2069--2069 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.densitypl ot"),[] [2844] Underfull \hbox (badness 10000) in paragraph at lines 2148--2151 []\T1/ptm/m/n/10 When []\T1/pcr/m/n/10 breaks []\T1/ptm/m/n/10 is un-spec-i-fie d, the value of Underfull \hbox (badness 1320) in paragraph at lines 2148--2151 []\T1/pcr/m/n/10 lattice.getOption("histogram.breaks") []\T1/ptm/m/n/10 is firs t checked. If [2845] [2846] [2847] Overfull \hbox (12.78088pt too wide) in paragraph at lines 2353--2353 [] \T1/pcr/m/n/10 drop.unused.levels = lattice.getOption("drop.unused.le vels"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2357--2357 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default .qqmath"),[] [2848] [2849] [2850] [2851] Overfull \hbox (60.78088pt too wide) in paragraph at lines 2713--2713 [] \T1/pcr/m/n/10 panel = if (useRaster) lattice.getOption("panel.lev elplot.raster")[] [2852] Overfull \hbox (0.78088pt too wide) in paragraph at lines 2745--2745 [] \T1/pcr/m/n/10 lattice.getOption("prepanel.default.contourpl ot"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2853] Underfull \hbox (badness 2913) in paragraph at lines 2824--2829 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 2824--2829 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as [2854] [2855] Underfull \hbox (badness 6758) in paragraph at lines 2952--2956 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether the col-orkey should be Underfull \hbox (badness 7576) in paragraph at lines 2952--2956 \T1/ptm/m/n/10 ren-dered as a raster im-age us-ing [][][]\T1/pcr/m/n/10 grid.ra ster[][][][]\T1/ptm/m/n/10 . See also Underfull \hbox (badness 10000) in paragraph at lines 2958--2960 []\T1/ptm/m/n/10 Logical flag, passed to [][][]\T1/pcr/m/n/10 rasterGrob[][][] []\T1/ptm/m/n/10 when Underfull \hbox (badness 7256) in paragraph at lines 2995--2995 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gr oups[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1609) in paragraph at lines 3008--3014 []\T1/ptm/m/n/10 A log-i-cal flag in-di-cat-ing whether raster rep-re-sen-ta-ti ons should be used, Underfull \hbox (badness 2772) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 both for the false color im-age and the color key (if present). Ef- Underfull \hbox (badness 1400) in paragraph at lines 3008--3014 \T1/ptm/m/n/10 fec-tively, set-ting this to []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n /10 changes the de-fault panel func-tion from Underfull \hbox (badness 2486) in paragraph at lines 3032--3036 []\T1/ptm/m/n/10 Other use-ful ar-gu-ments are men-tioned in the help page for the de-fault panel func-tion [2856] [2857] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3137--3137 [] \T1/pcr/m/n/10 xlim = if (is.factor(x)) levels(x) else range(x, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3138--3138 [] \T1/pcr/m/n/10 ylim = if (is.factor(y)) levels(y) else range(y, finite = TRUE),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3139--3139 [] \T1/pcr/m/n/10 zlim = if (is.factor(z)) levels(z) else range(z, finite = TRUE),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3150--3150 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. cloud"),[] [2858] Overfull \hbox (66.78088pt too wide) in paragraph at lines 3165--3165 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defa ult.wireframe"),[] [2859] Underfull \hbox (badness 2913) in paragraph at lines 3230--3235 []\T1/ptm/m/n/10 Optional vec-tors of val-ues that de-fine the grid when []\T1/ pcr/m/n/10 x []\T1/ptm/m/n/10 is a ma-trix. Underfull \hbox (badness 3058) in paragraph at lines 3230--3235 []\T1/pcr/m/n/10 row.values []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 column.values []\T1/ptm/m/n/10 must have the same lengths as Underfull \hbox (badness 2418) in paragraph at lines 3236--3236 []\T1/pcr/m/n/10 allow.multiple[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 outer[]\T1/p tm/m/n/10 , []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepan el[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 groups[]\T1/ptm/m/n/10 , [2860] [2861] [2862] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.parallel} ) has been already used, duplicate ignored \relax l.3517 \aliasA{parallel}{B.08 splom}{parallel} [2863] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3559--3559 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.default. splom"),[] Overfull \hbox (54.78088pt too wide) in paragraph at lines 3582--3582 [] \T1/pcr/m/n/10 default.prepanel = lattice.getOption("prepanel.defau lt.parallel"),[] Underfull \vbox (badness 10000) has occurred while \output is active [2864] [2865] [2866] [2867] [2868] Overfull \hbox (18.78088pt too wide) in paragraph at lines 3917--3917 []\T1/pcr/m/n/10 oneway(formula, data, location=mean, spread=function(x) sqrt( var(x))) [2869] [2870] Underfull \hbox (badness 2277) in paragraph at lines 4003--4007 []\T1/ptm/m/n/10 A pos-si-ble use of this ar-gu-ment is to change the de-fault set-tings by Underfull \hbox (badness 2435) in paragraph at lines 4003--4007 \T1/ptm/m/n/10 For back-compatibility, this is ini-tially (when lat-tice is loa ded) set to [2871] Overfull \hbox (120.78088pt too wide) in paragraph at lines 4100--4100 [] \T1/pcr/m/n/10 symbol = palette.colors(palette = "Okabe-Ito") [c(6, 2, 4, 7, 3, 5, 8)],[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 4102--4102 [] \T1/pcr/m/n/10 region = hcl.colors(14, palette = "YlGnBu", re v = TRUE),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 4109--4109 [] \T1/pcr/m/n/10 reference = "gray90", bg = "transparent", fg = " black",[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 4110--4110 [] \T1/pcr/m/n/10 strip.bg = rep("gray95", 7), strip.fg = rep("gra y70", 7),[] [2872] [2873] Overfull \hbox (18.78088pt too wide) in paragraph at lines 4253--4253 []\T1/pcr/m/n/10 trellis.par.set(name, value, ..., theme, warn = TRUE, strict = FALSE) Underfull \hbox (badness 1173) in paragraph at lines 4262--4266 []\T1/ptm/m/n/10 A char-ac-ter string giv-ing the name of a com-po-nent. If un- spec-i-fied in [2874] Underfull \hbox (badness 3219) in paragraph at lines 4289--4291 []\T1/ptm/m/n/10 A log-i-cal flag, in-di-cat-ing whether a warn-ing should be i s-sued when Underfull \hbox (badness 1728) in paragraph at lines 4306--4310 []\T1/pcr/m/n/10 theme[]\T1/ptm/m/n/10 ). These are used to mod-ify the cur-ren t set-tings (ob-tained by [2875] Underfull \hbox (badness 5161) in paragraph at lines 4371--4375 []\T1/ptm/m/n/10 The ac-tual list of the com-po-nents in []\T1/pcr/m/n/10 trell is.settings []\T1/ptm/m/n/10 has not been fi-nal-ized, Underfull \hbox (badness 4913) in paragraph at lines 4371--4375 \T1/ptm/m/n/10 so I'm not at-tempt-ing to list them here. The cur-rent value ca n be ob-tained by [2876] Underfull \hbox (badness 1067) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 A color spec-i-fi-ca-tion. []\T1/pcr/m/n/10 col []\T1/ptm/m/n/ 10 is used for com-po-nents []\T1/pcr/m/n/10 "plot.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "plot.line"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "plot.polygon"[ ]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1735) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.line"[]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 "super pose.polygon"[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 col.points Underfull \hbox (badness 10000) in paragraph at lines 4489--4499 []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , but is used only for []\T1/pcr/m/n/10 "plot.symbol" []\T1/ptm/m/n/10 and Underfull \hbox (badness 5231) in paragraph at lines 4489--4499 []\T1/pcr/m/n/10 "superpose.symbol"[]\T1/ptm/m/n/10 . Sim-i-larly, []\T1/pcr/m/ n/10 col.line []\T1/ptm/m/n/10 over-rides []\T1/pcr/m/n/10 col []\T1/ptm/m/n/10 for [2877] Underfull \hbox (badness 1701) in paragraph at lines 4514--4517 []\T1/ptm/m/n/10 fill color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 pl ot.symbol[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 plot.polygon[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 4517--4519 []\T1/ptm/m/n/10 border color, ap-pli-ca-ble for com-po-nents []\T1/pcr/m/n/10 plot.polygon []\T1/ptm/m/n/10 and [2878] Underfull \hbox (badness 2932) in paragraph at lines 4660--4665 []\T1/pcr/m/n/10 auto.key[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 aspect[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 between[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 grid[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 skip[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ ptm/m/n/10 , []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , [2879] [2880] [2881] [2882] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4936--4936 []\T1/pcr/m/n/9 p12 <- densityplot( ~ height | voice.part, data = singer, xlab = "Height")[] [2883] [2884] Underfull \hbox (badness 1558) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 main[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 page[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 par.strip.text[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 prepanel[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 scales[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 skip []\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 strip[]\T1/ptm/m/n/10 , Underfull \hbox (badness 1270) in paragraph at lines 5059--5059 []\T1/pcr/m/n/10 xscale.components[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 yscale.co mponents[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 axis[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 par.settings[]\T1/ptm/m/n/10 , Underfull \vbox (badness 1092) has occurred while \output is active [2885] Underfull \hbox (badness 10000) in paragraph at lines 5116--5119 []\T1/ptm/m/n/10 An ob-ject of class []\T1/pcr/m/n/10 trellis[]\T1/ptm/m/n/10 , by de-fault plot-ted by []\T1/pcr/m/n/10 print.trellis[]\T1/ptm/m/n/10 . [2886] [2887] Underfull \hbox (badness 1442) in paragraph at lines 5243--5246 []\T1/pcr/m/n/10 plot.shingle []\T1/ptm/m/n/10 dis-plays the ranges of shin-gle s via rect-an-gles. []\T1/pcr/m/n/10 print.shingle []\T1/ptm/m/n/10 and [2888] [2889] [2890] [2891] [2892] Underfull \hbox (badness 3646) in paragraph at lines 5582--5585 [][][]\T1/pcr/m/n/10 Lattice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 draw. key[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 trellis.par.get[][][][]\T1/ptm /m/n/10 , and [][][]\T1/pcr/m/n/10 xyplot[][][][]\T1/ptm/m/n/10 , specif-i-call y the en-try for Overfull \hbox (36.78088pt too wide) in paragraph at lines 5612--5612 [] \T1/pcr/m/n/10 bg = trellis.par.get("strip.background")$col[wh ich.given],[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5613--5613 [] \T1/pcr/m/n/10 fg = trellis.par.get("strip.shingle")$col[which .given],[] [2893] Underfull \hbox (badness 10000) in paragraph at lines 5695--5698 []\T1/ptm/m/n/10 logical, spec-i-fy-ing whether the la-bels etc should be hor-i -zon-tal. Underfull \hbox (badness 2103) in paragraph at lines 5695--5698 []\T1/pcr/m/n/10 horizontal=FALSE []\T1/ptm/m/n/10 is use-ful for strips on the left of pan-els us-ing [2894] Underfull \hbox (badness 1635) in paragraph at lines 5721--5726 []\T1/pcr/m/n/10 strip.default []\T1/ptm/m/n/10 is called for its side-effect, which is to draw a strip ap-pro-pri-ate for [2895] [2896] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5872--5872 []\T1/pcr/m/n/10 panel.identify.qqmath(x, distribution, groups, subscripts, la bels,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5886--5886 []\T1/pcr/m/n/10 panel.link.splom(threshold = 18, verbose = getOption("verbose "), ...)[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5887--5887 []\T1/pcr/m/n/10 panel.brush.splom(threshold = 18, verbose = getOption("verbos e"), ...)[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5890--5890 []\T1/pcr/m/n/10 trellis.vpname(name = c("position", "split", "split.location" , "toplevel",[] Overfull \hbox (48.78088pt too wide) in paragraph at lines 5893--5893 [] \T1/pcr/m/n/10 "xlab", "ylab", "xlab.top", "ylab.rig ht", "page"),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 5895--5895 [] \T1/pcr/m/n/10 side = c("left", "top", "right", "bottom", "in side"),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5901--5901 [] \T1/pcr/m/n/10 which.given = lattice.getStatus("current.whi ch.given",[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5902--5902 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 5903--5903 [] \T1/pcr/m/n/10 which.panel = lattice.getStatus("current.whi ch.panel",[] [2897] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5904--5904 [] \T1/pcr/m/n/10 prefix = pre fix),[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 5905--5905 [] \T1/pcr/m/n/10 column = lattice.getStatus("current.focus.co lumn",[] Underfull \hbox (badness 10000) in paragraph at lines 5921--5923 []\T1/ptm/m/n/10 variables defin-ing the con-tents of the panel. In the case of Underfull \hbox (badness 2376) in paragraph at lines 5932--5934 []\T1/ptm/m/n/10 an op-tional vec-tor of la-bels as-so-ci-ated with each point. De-faults to [2898] Underfull \hbox (badness 2538) in paragraph at lines 6056--6060 \T1/ptm/m/n/10 For []\T1/pcr/m/n/10 trellis.focus[]\T1/ptm/m/n/10 , the de-faul t is []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 in in-ter-ac-tive mode, and Underfull \hbox (badness 4205) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 For []\T1/pcr/m/n/10 panel.identify.qqmath[]\T1/ptm/m/n/10 , e x-tra pa-ram-e-ters are passed on to Underfull \hbox (badness 4792) in paragraph at lines 6067--6074 []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 trellis.switchFocus[]\T1/ptm/m/n/10 , the se are used (in com-bi-na-tion with [2899] [2900] Underfull \hbox (badness 10000) in paragraph at lines 6220--6224 [][][]\T1/pcr/m/n/10 identify[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Latt ice[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.trellis[][][][]\T1/ptm/m /n/10 , [][][]\T1/pcr/m/n/10 trellis.currentLayout[][][][]\T1/ptm/m/n/10 , [2901] Underfull \vbox (badness 10000) has occurred while \output is active [2902] [2903] Underfull \hbox (badness 4242) in paragraph at lines 6367--6372 []\T1/ptm/m/n/10 Graphical pa-ram-e-ters for the bars. By de-fault, the trel-li s pa-ram-e- [2904] [2905] Underfull \hbox (badness 3601) in paragraph at lines 6483--6488 []\T1/ptm/m/n/10 Creates Box and Whisker plot of []\T1/pcr/m/n/10 x []\T1/ptm/m /n/10 for ev-ery level of []\T1/pcr/m/n/10 y []\T1/ptm/m/n/10 (or the other way round Underfull \hbox (badness 2486) in paragraph at lines 6483--6488 \T1/ptm/m/n/10 if []\T1/pcr/m/n/10 horizontal=FALSE[]\T1/ptm/m/n/10 ). By de-fa ult, the ac-tual box-plot statis-tics are cal-cu-lated us-ing [2906] Overfull \hbox (60.78088pt too wide) in paragraph at lines 6569--6569 [] \T1/pcr/m/n/10 shade.colors.palette = trellis.par.get("shade.co lors")$palette,[] [2907] [2908] [2909] Underfull \hbox (badness 10000) in paragraph at lines 6768--6772 []\T1/ptm/m/n/10 All three num-bers should be be-tween 0 and 1. The Underfull \hbox (badness 10000) in paragraph at lines 6773--6775 []\T1/ptm/m/n/10 numeric, be-tween 0 and 1, giv-ing a min-i-mum sat-u-ra-tion i n [2910] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6869--6869 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Inferno"),[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 6872--6872 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Dark Mint"),[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6875--6875 [] \T1/pcr/m/n/9 shade.colors.palette = makeShadePalette(hcl.colors(1 0, "Harmonic"),[] [2911] [2912] [2913] [2914] [2915] Underfull \hbox (badness 1320) in paragraph at lines 7236--7243 []\T1/pcr/m/n/10 panel.levelplot.raster []\T1/ptm/m/n/10 is an al-ter-na-tive p anel func-tion that uses the raster draw- Underfull \hbox (badness 1715) in paragraph at lines 7236--7243 \T1/ptm/m/n/10 can only ren-der data on an eq-ui-s-paced grid), but can be more ef-fi-cient. When us-ing [2916] [2917] Overfull \hbox (0.78088pt too wide) in paragraph at lines 7311--7311 [] \T1/pcr/m/n/10 varname = NULL, limits, at = NULL, labels = NULL,[] Underfull \hbox (badness 10000) in paragraph at lines 7341--7345 []\T1/ptm/m/n/10 The panel func-tion used for the di-ag-o-nals. See ar-gu-ments to Underfull \hbox (badness 1584) in paragraph at lines 7341--7345 []\T1/pcr/m/n/10 diag.panel.splom []\T1/ptm/m/n/10 to know what ar-gu-ments thi s func-tion is passed [2918] [2919] Underfull \hbox (badness 10000) in paragraph at lines 7446--7449 \T1/ptm/m/n/10 and []\T1/pcr/m/n/10 diag.panel []\T1/ptm/m/n/10 from []\T1/pcr/ m/n/10 panel.pairs[]\T1/ptm/m/n/10 . Cur-rently ig-nored by Overfull \hbox (101.58032pt too wide) in paragraph at lines 7471--7471 [] \T1/pcr/m/n/9 function(i,j) hcl.colors(11)[i+j-1]) ## rainbow( 11, start=.12, end=.5)[i+j-1])[] [2920] [2921] Underfull \hbox (badness 2012) in paragraph at lines 7621--7624 []\T1/ptm/m/n/10 Further ar-gu-ments, of-ten graph-i-cal pa-ram-e-ters, even-tu -ally passed on to [2922] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7667--7667 [] \T1/pcr/m/n/9 panel.qqmath(..., f.value = ppoints(100), ta ils.n = 50))[] [2923] [2924] Underfull \hbox (badness 1939) in paragraph at lines 7856--7864 []\T1/pcr/m/n/10 "lm" []\T1/ptm/m/n/10 adds a lin-ear re-gres-sion line (same a s [][][]\T1/pcr/m/n/10 panel.lmline[][][][]\T1/ptm/m/n/10 , ex-cept Underfull \hbox (badness 1163) in paragraph at lines 7856--7864 \T1/ptm/m/n/10 for de-fault graph-i-cal pa-ram-e-ters). []\T1/pcr/m/n/10 "loess " []\T1/ptm/m/n/10 adds a loess fit (same as [2925] Underfull \hbox (badness 2772) in paragraph at lines 7879--7882 []\T1/ptm/m/n/10 Most gen-er-ally, []\T1/pcr/m/n/10 grid []\T1/ptm/m/n/10 can b e a list of ar-gu-ments to be sup-plied to [2926] Overfull \hbox (25.98041pt too wide) in paragraph at lines 7950--7950 [] \T1/pcr/m/n/9 ylab = list(c("horizontal=TRUE", "horizontal=FALSE"), y = c(1/6, 4/6)),[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7960--7960 [] \T1/pcr/m/n/9 scales = list(alternating = c(0, 2), tck = c(0, 0.7), d raw = FALSE),[] [2927] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8045--8045 [] \T1/pcr/m/n/10 font, fontfamily, fontface, cex, ..., identifier, nam e.type)[] Overfull \hbox (84.78088pt too wide) in paragraph at lines 8064--8064 [] \T1/pcr/m/n/10 adj = c(0.5, 0.5), pos = NULL, offset = 0.5, ..., ide ntifier, name.type)[] Underfull \vbox (badness 10000) has occurred while \output is active [2928] Underfull \hbox (badness 6428) in paragraph at lines 8113--8113 []\T1/pcr/m/n/10 col[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 alpha[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lty[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lwd[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 fill[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pch[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 cex[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 lineheight[]\T1/ptm/m/n /10 , []\T1/pcr/m/n/10 font[]\T1/ptm/m/n/10 , [2929] Overfull \hbox (63.78036pt too wide) in paragraph at lines 8201--8201 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.rect, col = 4, alpha = 0.5, wid th = 0.1, height = 0.1)[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8208--8208 []\T1/pcr/m/n/9 xyplot(y ~ x, d, panel = panel.polygon, col = 4, alpha = 0.5, rule = "evenodd")[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8210--8210 []\T1/pcr/m/n/9 ## Example adapted from https://journal.r-project.org/articles /RJ-2012-017/[] [2930] Overfull \hbox (15.18042pt too wide) in paragraph at lines 8214--8214 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polygon, rule = "none", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8215--8215 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "windin g", col = "grey")[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 8216--8216 []\T1/pcr/m/n/9 xyplot(y ~ x, data = d, panel = panel.polypath, rule = "evenod d", col = "grey")[] Overfull \hbox (66.78088pt too wide) in paragraph at lines 8275--8275 []\T1/pcr/m/n/10 panel.grid(h=3, v=3, col, col.line, lty, lwd, x, y, ..., iden tifier = "grid")[] [2931] Underfull \hbox (badness 1436) in paragraph at lines 8330--8336 []\T1/ptm/m/n/10 A log-i-cal flag de-ter-min-ing whether the de-fault graph-i-c al pa-ram-e-ters for [2932] [2933] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8460--8460 [] \T1/pcr/m/n/9 panel.superpose(x, y, ..., panel.groups = panel.ave rage, grid = FALSE,[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8474--8474 [] \T1/pcr/m/n/9 args = list(mean = mean(x), sd = sd(x)), ...)[] [2934] [2935] [2936] [2937] [2938] [2939] Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 Extra ar-gu-ments. Passed down to []\T1/pcr/m/n/10 panel.super pose Underfull \hbox (badness 10000) in paragraph at lines 8899--8902 []\T1/ptm/m/n/10 from []\T1/pcr/m/n/10 panel.superpose.2[]\T1/ptm/m/n/10 , and to []\T1/pcr/m/n/10 panel.groups []\T1/ptm/m/n/10 from [2940] [2941] [2942] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9074--9074 []\T1/pcr/m/n/10 prepanel.default.bwplot(x, y, horizontal, nlevels, origin, st ack, ...)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9075--9075 []\T1/pcr/m/n/10 prepanel.default.histogram(x, breaks, equal.widths, type, nin t, ...)[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9087--9087 []\T1/pcr/m/n/10 prepanel.default.densityplot(x, darg, groups, weights, subscr ipts, ...)[] Underfull \hbox (badness 3118) in paragraph at lines 9106--9109 []\T1/ptm/m/n/10 details of his-togram cal-cu-la-tions. []\T1/pcr/m/n/10 type [ ]\T1/ptm/m/n/10 has a dif-fer-ent mean-ing in [2943] Underfull \hbox (badness 1515) in paragraph at lines 9181--9185 []\T1/ptm/m/n/10 numeric vec-tor of length two, rep-re-sent-ing prob-a-bil-i-ti es. If used with [2944] [2945] Underfull \hbox (badness 6316) in paragraph at lines 9287--9292 []\T1/ptm/m/n/10 which packet (counted ac-cord-ing to the packet or-der, de-scr ibed in [2946] Overfull \hbox (47.58038pt too wide) in paragraph at lines 9397--9397 [] \T1/pcr/m/n/9 ans$bottom$labels$labels <- parse(text = ans$b ottom$labels$labels)[] [2947] Underfull \vbox (badness 10000) has occurred while \output is active [2948] [2949] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9536--9536 []\T1/pcr/m/n/9 xyplot(sunspot.year ~ time(sunspot.year) | equal.count(time(su nspot.year)),[] [2950] Underfull \hbox (badness 1028) in paragraph at lines 9600--9605 \T1/pcr/m/n/10 condition []\T1/ptm/m/n/10 for 2-D, and []\T1/pcr/m/n/10 left, r ight.x, right.y, left.name, right.x.name, [2951] [2952] [2953] [2954] [2955] [2956] Underfull \hbox (badness 7238) in paragraph at lines 10045--10049 []\T1/ptm/m/n/10 Factor with lev-els []\T1/pcr/m/n/10 "Svansota"[]\T1/ptm/m/n/1 0 , []\T1/pcr/m/n/10 "No. 462"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Manchuria"[] \T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 475"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 10045--10049 []\T1/pcr/m/n/10 "Velvet"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Peatland"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "Glabron"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "No. 4 57"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "Wisconsin No. 38"[]\T1/ptm/m/n/10 , [2957] [2958] [2959] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.melanoma} ) has been already used, duplicate ignored \relax l.10276 \aliasA{melanoma}{H melanoma}{melanoma} [2960] [2961] [2962] Underfull \hbox (badness 10000) in paragraph at lines 10438--10443 \T1/pcr/m/n/10 diseases[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Diabetes[]\T1/ptm/m/ n/10 , []\T1/pcr/m/n/10 Flu and pneumonia[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 He art disease[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 Lower Overfull \hbox (9.78043pt too wide) in paragraph at lines 10511--10511 [] \T1/pcr/m/n/9 par.settings = simpleTheme(pch = 16), auto.key = list( columns = 2),[] [2963] [2964]) (./mgcv-pkg.tex Chapter 24. [2965] [2966] Overfull \hbox (6.78088pt too wide) in paragraph at lines 160--160 []\T1/pcr/m/n/10 bam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL, Overfull \hbox (18.78088pt too wide) in paragraph at lines 163--163 [] \T1/pcr/m/n/10 paraPen=NULL,chunk.size=10000,rho=0,AR.start=NULL,discret e=FALSE,[] [2967] Overfull \hbox (48.78088pt too wide) in paragraph at lines 165--165 [] \T1/pcr/m/n/10 coef=NULL,drop.unused.levels=TRUE,G=NULL,fit=TRUE,drop.in tercept=NULL,[] Underfull \hbox (badness 1142) in paragraph at lines 185--189 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from Underfull \hbox (badness 1043) in paragraph at lines 210--215 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [2968] [2969] [2970] [2971] Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 mgcv.parallel[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/ptm/m/n/10 , [][][]\T1 /pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 384--391 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [2972] Overfull \hbox (4.38043pt too wide) in paragraph at lines 427--427 []\T1/pcr/m/n/9 system.time(b2 <- bam(y ~ s(x0,bs=bs,k=k)+s(x1,bs=bs,k=k)+s(x2 ,bs=bs,k=k)+[] [2973] [2974] [2975] [2976] [2977] Underfull \hbox (badness 2922) in paragraph at lines 723--724 []\T1/ptm/m/n/10 The link func-tion: one of []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m /n/10 , []\T1/pcr/m/n/10 "probit"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "cloglog" []\T1/ptm/m/n/10 and [2978] [2979] Underfull \hbox (badness 1406) in paragraph at lines 793--794 []\T1/ptm/m/n/10 The MKL BLAS is mut-lithreaded by de-fault. Un-der linux set-t ing en-vi-ron-ment vari-able [2980] [2981] Underfull \hbox (badness 1158) in paragraph at lines 903--905 []\T1/ptm/m/n/10 Choosing the ba-sis di-men-sion, and check-ing the choice, whe n us-ing pe-nal-ized re-gres-sion [2982] Underfull \hbox (badness 1259) in paragraph at lines 966--967 []\T1/ptm/m/n/10 Wood, S.N. (2017) Gen-er-al-ized Ad-di-tive Mod-els: An In-tro -duc-tion with R (2nd edi-tion). [2983] Underfull \vbox (badness 10000) has occurred while \output is active [2984] [2985] [2986] [2987] [2988] [2989] [2990] [2991] [2992] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1502--1502 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h + 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1503--1503 []\T1/pcr/m/n/9 lines(b$family$data$tr,exp(-b$family$data$h - 2*b$family$data$ q^.5),col=2)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1520--1520 [] \T1/pcr/m/n/9 plot(b$y[oy],rs[oy,ii[1]],ylim=c(-3,3),type="l",ylab="scor e residuals",[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1532--1532 []\T1/pcr/m/n/9 bs <- gam(cbind(time,strata)~s(age,by=sex)+sex+s(nodes)+perfor +rx+obstruct[] Underfull \vbox (badness 10000) has occurred while \output is active [2993] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1541--1541 []\T1/pcr/m/n/9 if (i==1) plot(bs$family$data$tr[ind],exp(-bs$family$data$h[in d]),type="l",[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1543--1543 [] \T1/pcr/m/n/9 lines(bs$family$data$tr[ind],exp(-bs$family$data$h[ind]) ,lwd=2,col=i)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1574--1574 []\T1/pcr/m/n/9 b <- gam(t~s(x0)+s(x1)+s(x2,k=15)+s(x3),family=cox.ph,weights= d,data=surv)[] Underfull \vbox (badness 10000) has occurred while \output is active [2994] [2995] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1657--1657 [] \T1/pcr/m/n/9 if (inter) prg <- txtProgressBar(min = 0, max = length(sid), initial = 0,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1668--1668 [] \T1/pcr/m/n/9 if (um[[et]][1]==max(tr)&&um[[status]][1]==1) um[[event]][ nrow(um)] <- 1[] Underfull \vbox (badness 10000) has occurred while \output is active [2996] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1707--1707 []\T1/pcr/m/n/9 pd <- data.frame(lapply(X=di,FUN=app,t=di$day,to=te)) ## inter polate to te[] [2997] [2998] [2999] [3000] [3001] [3002] [3003] [3004] [3005] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2234--2234 []\T1/pcr/m/n/9 bd <- bam(y~s(x0)+ s(x1) + s(x1,fac,bs="sz",k=5)+s(x2,k=20),di screte=TRUE)[] [3006] [3007] [3008] [3009] Overfull \hbox (30.78088pt too wide) in paragraph at lines 2470--2470 []\T1/pcr/m/n/10 fixDependence(X1,X2,tol=.Machine$double.eps^.5,rank.def=0,str ict=FALSE) [3010] [3011] [3012] [3013] [3014] [3015] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2827--2827 []\T1/pcr/m/n/10 gam(formula,family=gaussian(),data=list(),weights=NULL,subset =NULL,[] Underfull \hbox (badness 1728) in paragraph at lines 2839--2842 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 2852--2856 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3016] Underfull \hbox (badness 1043) in paragraph at lines 2878--2884 \T1/ptm/m/n/10 un-known scale pa-ram-e-ter and Mal-lows' Cp/UBRE/AIC for known scale. [3017] Underfull \hbox (badness 1389) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 A list spec-i-fy-ing the neigh-bour-hood struc-ture for [][][] \T1/pcr/m/n/10 NCV[][][][]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 a []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 2495) in paragraph at lines 2955--2956 []\T1/ptm/m/n/10 gives the points dropped for the neigh-bour-hood []\T1/pcr/m/n /10 j[]\T1/ptm/m/n/10 . []\T1/pcr/m/n/10 d []\T1/ptm/m/n/10 is the vec-tor Underfull \hbox (badness 1558) in paragraph at lines 2955--2956 \T1/ptm/m/n/10 of in-dices of points to pre-dict, with cor-re-spond-ing end-poi nts []\T1/pcr/m/n/10 md[]\T1/ptm/m/n/10 . So [3018] [3019] Underfull \hbox (badness 1043) in paragraph at lines 3042--3048 \T1/ptm/m/n/10 eral lin-ear func-tion-als of smooths, via the sum-ma-tion con-v en-tion mech-a-nism de-scribed in [3020] [3021] Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 mgcv-package[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gamObject[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.models[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 smooth.terms[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 linear.functional.terms[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][] [][]predict. gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 3184--3190 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 g am.side[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.selection[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 gam.control[][][] [][]gam.check[][][][]\T1/ptm /m/n/10 , [3022] Underfull \vbox (badness 10000) has occurred while \output is active [3023] Underfull \vbox (badness 10000) has occurred while \output is active [3024] [3025] [3026] [3027] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3505--3505 []\T1/pcr/m/n/10 gam.control(nthreads=1,ncv.threads=1,irls.reg=0.0,epsilon = 1 e-07, Overfull \hbox (0.78088pt too wide) in paragraph at lines 3506--3506 [] \T1/pcr/m/n/10 maxit = 200,mgcv.tol=1e-7,mgcv.half=15, trace = F ALSE,[] [3028] [3029] [3030] [3031] [3032] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3841--3841 [] \T1/pcr/m/n/10 mustart = NULL, offset = rep(0, nobs), U1 = diag(nco l(x)),[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 3844--3844 [] \T1/pcr/m/n/10 printWarn=TRUE,scoreType="REML",null.coef=rep(0,ncol (x)),[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3845--3845 [] \T1/pcr/m/n/10 pearson.extra=0,dev.extra=0,n.true=-1,Sl=NULL,nei=NU LL,...)[] [3033] [3034] [3035] [3036] [3037] [3038] [3039] [3040] Underfull \hbox (badness 5189) in paragraph at lines 4321--4325 []\T1/ptm/m/n/10 Random ef-fects can be added to []\T1/pcr/m/n/10 gam []\T1/ptm /m/n/10 mod-els us-ing []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms ( see [3041] [3042] Overfull \hbox (9.78043pt too wide) in paragraph at lines 4438--4438 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Underfull \vbox (badness 10000) has occurred while \output is active [3043] [3044] [3045] Underfull \hbox (badness 1184) in paragraph at lines 4605--4609 []\T1/ptm/m/n/10 list of the square root penal-ties: last en-try is root of fix ed penalty, if [3046] [3047] [3048] [3049] [3050] [3051] [3052] [3053] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5070--5070 [] \T1/pcr/m/n/9 mod <- gam(y~s(a,bs="re")+s(b,bs="re")+s(a,b,bs="re")+s(x0,i d=1)+s(x1,id=1)+[] [3054] [3055] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5218--5218 []\T1/pcr/m/n/10 gamlss.gH(X, jj, l1, l2, i2, l3 = 0, i3 = 0, l4 = 0, i4 = 0, d1b = 0, [3056] [3057] Underfull \hbox (badness 1142) in paragraph at lines 5345--5349 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3058] Underfull \hbox (badness 10000) in paragraph at lines 5417--5426 []\T1/ptm/m/n/10 In the event of []\T1/pcr/m/n/10 lme []\T1/ptm/m/n/10 con-ver- gence fail-ures, con-sider mod-i-fy-ing [3059] [3060] Underfull \hbox (badness 5970) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 magic[][][] []\T1/ptm/m/n/10 for an al-ter-na-tive for cor -re-lated data, [][][]\T1/pcr/m/n/10 te[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gam[][][][]\T1/ptm /m/n/10 , [][][]\T1/pcr/m/n/10 plot.gam[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 1418) in paragraph at lines 5533--5539 [][][]\T1/pcr/m/n/10 summary.gam[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 n egbin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 vis.gam[][][][]\T1/ptm/m/n/1 0 ,[][][]\T1/pcr/m/n/10 pdTens[][][][]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 gamm4 [ ]\T1/ptm/m/n/10 ( [][]$\T1/pcr/m/n/10 https : / / cran . r-[]project . [3061] Underfull \vbox (badness 10000) has occurred while \output is active [3062] [3063] [3064] [3065] Underfull \hbox (badness 1577) in paragraph at lines 5882--5885 []\T1/ptm/m/n/10 If `outer' it-er-a-tion has been used to fit the model (see [] [][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 ar-gu-ment [3066] Underfull \hbox (badness 2181) in paragraph at lines 5889--5890 []\T1/ptm/m/n/10 one sided for-mula con-tain-ing vari-ables needed for pre-dic- tion, used by [3067] [3068] [3069] [3070] [3071] [3072] [3073] [3074] [3075] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6388--6388 []\T1/pcr/m/n/10 ginla(G,A=NULL,nk=16,nb=100,J=1,interactive=FALSE,integ=0,app rox=0) Underfull \hbox (badness 6708) in paragraph at lines 6394--6395 []\T1/ptm/m/n/10 A pre-fit gam ob-ject, as pro-duced by []\T1/pcr/m/n/10 gam(.. .,fit=FALSE) []\T1/ptm/m/n/10 or [3076] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6443--6443 [] \T1/pcr/m/n/9 ## example using a scale location model for the motorcycle d ata. A simple[] [3077] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6468--6468 [] \T1/pcr/m/n/9 } else lines(xg,predict(din,xg)$y,col=lcol[j],lwd=lwd[j] ,lty=lty[j])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6497--6497 [] \T1/pcr/m/n/9 fv <- predict(b,se=TRUE) ## usual Gaussian approximation, fo r comparison[] Underfull \vbox (badness 10000) has occurred while \output is active [3078] [3079] [3080] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6619--6619 [] \T1/pcr/m/n/9 (1+exp(-10*(x[201:300]-.5)))-0.9933071) + z*(1-z)*5 + r norm(100)*.4[] [3081] [3082] [3083] [3084] [3085] Overfull \hbox (24.78088pt too wide) in paragraph at lines 6947--6947 []\T1/pcr/m/n/10 jagam(formula,family=gaussian,data=list(),file,weights=NULL,n a.action, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6949--6949 []\T1/pcr/m/n/10 control=gam.control(),centred=TRUE,sp.prior = "gamma",diagona lize=FALSE)[] Underfull \hbox (badness 1142) in paragraph at lines 6970--6974 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3086] [3087] [3088] [3089] [3090] [3091] [3092] Overfull \hbox (72.78088pt too wide) in paragraph at lines 7292--7292 []\T1/pcr/m/n/10 ldTweedie(y,mu=y,p=1.5,phi=1,rho=NA,theta=NA,a=1.001,b=1.999, all.derivs=FALSE) [3093] [3094] [3095] Underfull \vbox (badness 10000) has occurred while \output is active [3096] Underfull \vbox (badness 10000) has occurred while \output is active [3097] [3098] [3099] Overfull \hbox (66.78088pt too wide) in paragraph at lines 7701--7701 []\T1/pcr/m/n/10 lp(c,A,b,C=NULL,d=NULL,Bi=NULL,maxit=max(1000, nrow(A) * 10), phase1 = FALSE) [3100] [3101] Overfull \hbox (52.98038pt too wide) in paragraph at lines 7817--7817 []\T1/pcr/m/n/9 "The world is ruled by idiots because only an idiot would want to rule the world.",[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7844--7844 [] \T1/pcr/m/n/10 .Machine$double.eps^0.5),extra.rss=0,n.score=length(y), nthreads=1)[] [3102] [3103] [3104] [3105] [3106] [3107] [3108] [3109] Underfull \vbox (badness 4805) has occurred while \output is active [3110] [3111] [3112] Underfull \hbox (badness 1242) in paragraph at lines 8461--8462 []\T1/ptm/m/n/10 Development of mgcv ver-sion 1.8 was part funded by EP-SRC gra nts EP/K005251/1 and [3113] [3114] Overfull \hbox (20.58041pt too wide) in paragraph at lines 8548--8548 []\T1/pcr/m/n/9 ## Alternative, better scaling example, using the discrete opt ion with bam...[] [3115] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8611--8611 []\T1/pcr/m/n/9 for (sim in c(1,7)) { ## cycle over uncorrelated and correlate d covariates[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8630--8630 [] \T1/pcr/m/n/9 dat1[[dname[i]]][dat1[[by.name]]] <- mean(dat1[[dname[i]]] ,na.rm=TRUE)[] [3116] [3117] [3118] [3119] [3120] [3121] [3122] [3123] [3124] [3125] [3126] [3127] [3128] [3129] [3130] [3131] [3132] [3133] [3134] [3135] [3136] Underfull \vbox (badness 10000) has occurred while \output is active [3137] [3138] Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/ptm/m/n/10 The fol-low-ing func-tions are pro-vided: []\T1/pcr/m/n/10 Dim .pdIndot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 corMatrix.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 logDet.pd Idnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdConstruct.pdIdnot[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3118) in paragraph at lines 9934--9937 []\T1/pcr/m/n/10 pdFactor.pdIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdMatrix.p dIdnot[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 solve.pdIdnot[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 summary.pdIdnot[]\T1/ptm/m/n/10 . [3139] Underfull \hbox (badness 10000) in paragraph at lines 9988--9991 []\T1/ptm/m/n/10 These func-tions ([]\T1/pcr/m/n/10 pdTens[]\T1/ptm/m/n/10 , [] \T1/pcr/m/n/10 pdConstruct.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pdFactor.p dTens[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3108) in paragraph at lines 9988--9991 []\T1/pcr/m/n/10 pdMatrix.pdTens[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 coef.pdTens []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 summary.pdTens[]\T1/ptm/m/n/10 ) would n ot nor-mally be [3140] [3141] [3142] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10202--10202 []\T1/pcr/m/n/10 plot(x,residuals=FALSE,rug=NULL,se=TRUE,pages=0,select=NULL,s cale=-1,[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 10206--10206 [] \T1/pcr/m/n/10 trans=I,seWithMean=FALSE,unconditional=FALSE,by.resi ds=FALSE,[] [3143] [3144] [3145] Underfull \hbox (badness 1629) in paragraph at lines 10362--10367 []\T1/ptm/m/n/10 just won't let you do it. In this case, the quick-est op-tion is some-times to clone the [3146] [3147] [3148] [3149] Overfull \hbox (84.78088pt too wide) in paragraph at lines 10575--10575 [] \T1/pcr/m/n/10 na.action=na.pass,cluster=NULL,discrete=TRUE,n.thread s=1,gc.level=0,...)[] Underfull \hbox (badness 1062) in paragraph at lines 10612--10616 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 type=="terms" []\T1/ptm/m/n/10 or []\T1/pc r/m/n/10 type="iterms" []\T1/ptm/m/n/10 then terms (smooth or para- [3150] [3151] [3152] Overfull \hbox (6.78088pt too wide) in paragraph at lines 10745--10745 [] \T1/pcr/m/n/10 na.action=na.pass,unconditional=FALSE,iterms.type=NUL L,...)[] [3153] [3154] [3155] Overfull \hbox (20.58041pt too wide) in paragraph at lines 10906--10906 []\T1/pcr/m/n/9 x1 <- seq(.2,.8,length=m1);x2 <- seq(.2,.8,length=m2) ## margi nal grid points[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 10907--10907 []\T1/pcr/m/n/9 df <- data.frame(x0=rep(.5,n),x1=rep(x1,m2),x2=rep(x2,each=m1) ,x3=rep(0,n))[] Underfull \vbox (badness 10000) has occurred while \output is active [3156] Underfull \vbox (badness 10000) has occurred while \output is active [3157] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11046--11046 [] \T1/pcr/m/n/9 Xi[,(i-1)*9+1:9+1] <- Xp[,(i-1)*9+1:9+1] ## Xi%*%coef(b) = s mooth deriv i[] [3158] Underfull \hbox (badness 1205) in paragraph at lines 11084--11085 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11084--11085 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for Underfull \hbox (badness 1975) in paragraph at lines 11090--11095 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3159] Underfull \hbox (badness 1205) in paragraph at lines 11174--11175 []\T1/ptm/m/n/10 A data frame con-tain-ing the val-ues of the (named) co-vari-a tes at which Underfull \hbox (badness 2689) in paragraph at lines 11174--11175 \T1/ptm/m/n/10 the smooth term is to be eval-u-ated. Ex-act re-quire-ments are as for [3160] Underfull \hbox (badness 10000) in paragraph at lines 11243--11246 []\T1/ptm/m/n/10 The smooth ob-ject will be largely what is re-turned from Underfull \hbox (badness 2057) in paragraph at lines 11243--11246 [][][]\T1/pcr/m/n/10 smooth.construct.so.smooth.spec[][][][]\T1/ptm/m/n/10 , al -though el-e-ments []\T1/pcr/m/n/10 X []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 S [ ]\T1/ptm/m/n/10 are not needed, [3161] Underfull \vbox (badness 10000) has occurred while \output is active [3162] Underfull \hbox (badness 1253) in paragraph at lines 11364--11366 []\T1/ptm/m/n/10 Note that the op-ti-mized smooth-ing pa-ram-e-ter se-lec-tion cri-te-rion re-ported is one of GCV, [3163] [3164] [3165] [3166] [3167] Underfull \hbox (badness 1946) in paragraph at lines 11615--11622 []\T1/ptm/m/n/10 The sec-ond method rep-re-sents the con-ven-tional ran-dom ef- fects in a GAM in the same Underfull \hbox (badness 2221) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 way that the smooths are rep-re-sented --- as pe-nal-ized re-gre s-sion terms. This method Underfull \hbox (badness 2042) in paragraph at lines 11615--11622 \T1/ptm/m/n/10 can be used with [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 by mak-ing use of []\T1/pcr/m/n/10 s(...,bs="re") []\T1/ptm/m/n/10 terms in a model: see [3168] [3169] Overfull \hbox (9.78043pt too wide) in paragraph at lines 11695--11695 []\T1/pcr/m/n/9 rm1 <- gam(y ~ s(fac,bs="re")+s(x0)+s(x1)+s(x2)+s(x3),data=dat ,method="ML")[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11705--11705 []\T1/pcr/m/n/9 ## The effect of the new factor levels (or any interaction inv olving them)[] Underfull \hbox (badness 10000) in paragraph at lines 11736--11739 []\T1/ptm/m/n/10 the type of resid-u-als wanted. Usu-ally one of []\T1/pcr/m/n/ 10 "deviance"[]\T1/ptm/m/n/10 , [3170] [3171] [3172] [3173] [3174] Overfull \hbox (36.78088pt too wide) in paragraph at lines 12037--12037 []\T1/pcr/m/n/10 s(..., k=-1,fx=FALSE,bs="tp",m=NA,by=NA,xt=NULL,id=NULL,sp=NU LL,pc=NULL) [3175] [3176] [3177] Overfull \hbox (18.78088pt too wide) in paragraph at lines 12197--12197 []\T1/pcr/m/n/10 scasm(formula,family=gaussian(),data=list(),weights=NULL,subs et=NULL,[] Overfull \hbox (42.78088pt too wide) in paragraph at lines 12199--12199 [] \T1/pcr/m/n/10 knots=NULL,sp=NULL,gamma=1,fit=TRUE,G=NULL,drop.unused. levels=TRUE,[] Underfull \hbox (badness 1728) in paragraph at lines 12207--12210 []\T1/ptm/m/n/10 A GAM for-mula, or a list of for-mu-lae (see [][][]\T1/pcr/m/n /10 formula.gam[][][] []\T1/ptm/m/n/10 and also Underfull \hbox (badness 1142) in paragraph at lines 12221--12225 \T1/ptm/m/n/10 ates re-quired by the for-mula. By de-fault the vari-ables are t aken from [3178] [3179] [3180] Underfull \vbox (badness 10000) has occurred while \output is active [3181] [3182] [3183] [3184] [3185] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12681--12681 [] \T1/pcr/m/n/9 true <- mu + (del * sigma) * sinh((1/del) * asinh(qnorm(qq)) + (eps/del))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12695--12695 []\T1/pcr/m/n/9 b <- gam(list(accel~s(times, k=20, bs = "ad"), ~s(times, k = 1 0), ~1, ~1),[] Underfull \vbox (badness 10000) has occurred while \output is active [3186] [3187] Underfull \hbox (badness 3861) in paragraph at lines 12797--12800 []\T1/ptm/m/n/10 INTERNAL rou-tine to ap-ply ini-tial Sl re-parameterization to model ma-trix X, or, if Overfull \hbox (36.78088pt too wide) in paragraph at lines 12806--12806 []\T1/pcr/m/n/10 Sl.initial.repara(Sl, X, inverse = FALSE, both.sides = TRUE, cov = TRUE,[] [3188] Underfull \hbox (badness 10000) in paragraph at lines 12823--12827 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- Underfull \hbox (badness 10000) in paragraph at lines 12863--12867 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 inverse==TRUE []\T1/ptm/m/n/10 and []\T1/p cr/m/n/10 both.sides==FALSE []\T1/ptm/m/n/10 then the re- [3189] Overfull \hbox (6.78088pt too wide) in paragraph at lines 12886--12886 []\T1/pcr/m/n/10 Sl.setup(G,cholesky=FALSE,no.repara=FALSE,sparse=FALSE,keepS= FALSE) [3190] [3191] Overfull \hbox (20.58041pt too wide) in paragraph at lines 13010--13010 [] \T1/pcr/m/n/9 range(er$values-um$values[ind]);range(abs(er$vectors)-abs(um$ vectors[,ind]))[] Underfull \hbox (badness 1975) in paragraph at lines 13021--13026 []\T1/ptm/m/n/10 Smooth terms in a GAM for-mula are turned into smooth spec-i-f i-ca-tion ob-jects of class [3192] Underfull \hbox (badness 1803) in paragraph at lines 13098--13102 \T1/ptm/m/n/10 The last en-try will be the []\T1/pcr/m/n/10 by []\T1/ptm/m/n/10 vari-able, if []\T1/pcr/m/n/10 object$by []\T1/ptm/m/n/10 is not []\T1/pcr/m/n /10 "NA"[]\T1/ptm/m/n/10 . Underfull \hbox (badness 1502) in paragraph at lines 13110--13122 []\T1/pcr/m/n/10 cs.smooth.spec []\T1/ptm/m/n/10 (cu-bic re-gres-sion splines w ith shrinkage-to-zero); []\T1/pcr/m/n/10 cc.smooth.spec [3193] Underfull \hbox (badness 2401) in paragraph at lines 13127--13131 []\T1/ptm/m/n/10 method is used if there is no more spe-cific method avail-able . Plot meth-ods can be Underfull \hbox (badness 2970) in paragraph at lines 13127--13131 \T1/ptm/m/n/10 added for spe-cific smooth classes, see source code for []\T1/pc r/m/n/10 mgcv:::plot.sos.smooth[]\T1/ptm/m/n/10 , [3194] [3195] [3196] Underfull \hbox (badness 6876) in paragraph at lines 13322--13328 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use adap-tive smooths of on e or two vari-ables, spec-i-fied via terms like [3197] Underfull \hbox (badness 10000) in paragraph at lines 13366--13367 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3198] [3199] Underfull \hbox (badness 10000) in paragraph at lines 13489--13490 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3200] Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 []\T1/ptm/m/n/10 Shape con-strained ver-sions for use with [][][]\T1/pcr/m/n/10 scasm[][][] []\T1/ptm/m/n/10 are spec-i-fied by model terms Underfull \hbox (badness 10000) in paragraph at lines 13514--13515 \T1/ptm/m/n/10 like []\T1/pcr/m/n/10 s(x,bs="sc",xt="m+") []\T1/ptm/m/n/10 for a mono-tonic in-creas-ing func-tion, or Overfull \hbox (4.38043pt too wide) in paragraph at lines 13546--13546 [] \T1/pcr/m/n/9 b <- gam(y~s(x0,bs=bs,m=c(4,2))+s(x1,bs=bs)+s(x2,k=15,bs=bs, m=c(4,3,0))+[] [3201] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13558--13558 [] \T1/pcr/m/n/9 ## now a model with first order penalty evaluated over (-.5, 1.5) (black)[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13570--13570 [] \T1/pcr/m/n/9 ## penalty defined on (-.5,1.5) gives plausible predictions and intervals[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13575--13575 [] \T1/pcr/m/n/9 ## penalty defined on whole real line gives constant width i ntervals away[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13581--13581 [] \T1/pcr/m/n/9 ## penalty defined only over the data interval (0,1) gives w ild and wide[] Overfull \hbox (3.70428pt too wide) in paragraph at lines 13582--13582 [] \T1/pcr/m/n/9 ## extrapolation since penalty has been \TS1/cmtt/m/n/9 `\T1 /pcr/m/n/9 turned off\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 outside data range:[] Underfull \vbox (badness 10000) has occurred while \output is active [3202] Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a Underfull \hbox (badness 10000) in paragraph at lines 13651--13653 \T1/ptm/m/n/10 term []\T1/pcr/m/n/10 s(...,bs="cr",...)[]\T1/ptm/m/n/10 , []\T1 /pcr/m/n/10 s(...,bs="cs",...) []\T1/ptm/m/n/10 or [3203] [3204] Underfull \hbox (badness 10000) in paragraph at lines 13781--13782 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3205] [3206] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13862--13862 []\T1/pcr/m/n/9 b <- gam(y~s(x,z,bs="ds",m=c(1,.5),k=50),data=data) ## first deriv penalty[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 13863--13863 []\T1/pcr/m/n/9 b1 <- gam(y~s(x,z,bs="ds",m=c(2,.5),k=50),data=data) ## modifi ed 2nd deriv[] [3207] [3208] [3209] Underfull \hbox (badness 10000) in paragraph at lines 14016--14017 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3210] [3211] [3212] [3213] Overfull \hbox (9.78043pt too wide) in paragraph at lines 14266--14266 []\T1/pcr/m/n/9 b <- gam(crime ~ s(district,bs="mrf",k=20,xt=xt),data=columb,m ethod="REML")[] [3214] Underfull \hbox (badness 10000) in paragraph at lines 14327--14329 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3215] [3216] Underfull \hbox (badness 10000) in paragraph at lines 14486--14489 []\T1/ptm/m/n/10 For the []\T1/pcr/m/n/10 smooth.construct []\T1/ptm/m/n/10 met hod a smooth spec-i-fi-ca-tion ob- Underfull \hbox (badness 3312) in paragraph at lines 14486--14489 \T1/ptm/m/n/10 ject, usu-ally gen-er-ated by a term []\T1/pcr/m/n/10 s(x,...,bs ="re",)[]\T1/ptm/m/n/10 . For the Underfull \hbox (badness 7099) in paragraph at lines 14486--14489 []\T1/pcr/m/n/10 predict.Matrix []\T1/ptm/m/n/10 method an ob-ject of class []\ T1/pcr/m/n/10 "random.effect" [3217] [3218] Overfull \hbox (4.38043pt too wide) in paragraph at lines 14572--14572 []\T1/pcr/m/n/9 b <- c(rnorm(nb/2)*2,rnorm(nb/2)*.5) ## random effect now with 2 variances[] [3219] Underfull \hbox (badness 10000) in paragraph at lines 14617--14623 []\T1/ptm/m/n/10 A smooth spec-i-fi-ca-tion ob-ject as pro-duced by a Underfull \hbox (badness 7832) in paragraph at lines 14617--14623 []\T1/pcr/m/n/10 s(...,bs="so",xt=list(bnd=bnd,...)) []\T1/ptm/m/n/10 term in a []\T1/pcr/m/n/10 gam []\T1/ptm/m/n/10 for- [3220] [3221] [3222] Overfull \hbox (36.7804pt too wide) in paragraph at lines 14830--14830 []\T1/pcr/m/n/9 ## notice NULL element in \TS1/pcr/m/n/9 '\T1/pcr/m/n/9 xt\TS1 /pcr/m/n/9 ' \T1/pcr/m/n/9 list - to indicate no xt object for "cr" basis...[] Underfull \vbox (badness 10000) has occurred while \output is active [3223] Underfull \vbox (badness 10000) has occurred while \output is active [3224] Underfull \hbox (badness 10000) in paragraph at lines 14933--14941 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths on th e sphere, via terms like Underfull \hbox (badness 10000) in paragraph at lines 14959--14960 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3225] [3226] [3227] Underfull \hbox (badness 7613) in paragraph at lines 15104--15107 []\T1/ptm/m/n/10 method an ob-ject of class []\T1/pcr/m/n/10 "sz.interaction" [ ]\T1/ptm/m/n/10 pro-duced by the Underfull \hbox (badness 1546) in paragraph at lines 15125--15126 []\T1/ptm/m/n/10 The terms can have a smooth-ing pa-ram-e-ter per smooth, or a sin-gle smooth-ing pa-ram-e- [3228] Overfull \hbox (128.58029pt too wide) in paragraph at lines 15171--15171 []\T1/pcr/m/n/9 b <- gam(y ~ s(x)+s(f1,x,bs="sz")+s(f2,x,bs="sz")+s(f1,f2,x,bs ="sz",id=1),data=dat,method="REML")[] [3229] [3230] [3231] Underfull \hbox (badness 3396) in paragraph at lines 15317--15320 [][][]\T1/pcr/m/n/10 gam[][][] []\T1/ptm/m/n/10 can use isotropic smooths of an y num-ber of vari-ables, spec-i-fied via terms like Underfull \hbox (badness 10000) in paragraph at lines 15362--15364 []\T1/ptm/m/n/10 a smooth spec-i-fi-ca-tion ob-ject, usu-ally gen-er-ated by a term [3232] [3233] [3234] [3235] [3236] [3237] Underfull \hbox (badness 10000) in paragraph at lines 15653--15655 []\T1/pcr/m/n/10 bs="fs" []\T1/ptm/m/n/10 A spe-cial smoother class (see [3238] Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 te[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 t2[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 tprs[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Duchon.spline[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cubic.regression.spline[][][][]\T1/ptm/m/n/ 10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 p.spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 d.sp line[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 mrf[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 soap[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Spherical .Spline[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 adaptive.smooth[][][][]\T1 /ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 15687--15691 [][][]\T1/pcr/m/n/10 user.defined.smooth[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 smooth.construct.re.smooth.spec[][][][]\T1/ptm/m/n/10 , [3239] [3240] [3241] [3242] [3243] Underfull \hbox (badness 2158) in paragraph at lines 15970--15970 []\T1/ptm/m/it/10 Extract smooth-ing pa-ram-e-ter es-ti-ma-tor co-vari-ance ma- trix from [3244] Overfull \hbox (48.78088pt too wide) in paragraph at lines 16049--16049 []\T1/pcr/m/n/10 spasm.sp(object,sp,w=rep(1,object$nobs),get.trH=TRUE,block=0, centre=FALSE)[] [3245] [3246] Overfull \hbox (12.78088pt too wide) in paragraph at lines 16183--16183 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars "),...)[] [3247] [3248] Underfull \hbox (badness 4846) in paragraph at lines 16314--16317 []\T1/ptm/m/n/10 The es-ti-mated co-vari-ance ma-trix of the pa-ram-e-ters (or es-ti-ma-tors if [3249] [3250] [3251] [3252] [3253] [3254] [3255] [3256] [3257] [3258] [3259] [3260] [3261] [3262] [3263] [3264] [3265] [3266] [3267] [3268] Overfull \hbox (120.78088pt too wide) in paragraph at lines 17541--17541 []\T1/pcr/m/n/10 vcov(object, sandwich=FALSE, freq = FALSE, dispersion = NULL, unconditional=FALSE, ...)[] [3269] Underfull \hbox (badness 1715) in paragraph at lines 17563--17564 []\T1/ptm/m/n/10 Basically, just ex-tracts []\T1/pcr/m/n/10 object$Ve[]\T1/ptm/ m/n/10 , []\T1/pcr/m/n/10 object$Vp []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 object $Vc []\T1/ptm/m/n/10 (if avail-able) from a [3270] [3271] [3272] Overfull \hbox (54.78088pt too wide) in paragraph at lines 17754--17754 []\T1/pcr/m/n/10 XWXd(X,w,k,ks,ts,dt,v,qc,nthreads=1,drop=NULL,ar.stop=-1,ar.r ow=-1,ar.w=-1, Overfull \hbox (48.78088pt too wide) in paragraph at lines 17756--17756 []\T1/pcr/m/n/10 XWyd(X,w,y,k,ks,ts,dt,v,qc,drop=NULL,ar.stop=-1,ar.row=-1,ar. w=-1,lt=NULL)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 17758--17758 []\T1/pcr/m/n/10 diagXVXd(X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,rt= NULL)[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 17759--17759 []\T1/pcr/m/n/10 ijXVXd(i,j,X,V,k,ks,ts,dt,v,qc,drop=NULL,nthreads=1,lt=NULL,r t=NULL)[] [3273] Underfull \hbox (badness 10000) in paragraph at lines 17779--17780 []\T1/ptm/m/n/10 Negative to ig-nore. Oth-er-wise sum rows Underfull \hbox (badness 1668) in paragraph at lines 17779--17780 []\T1/pcr/m/n/10 (ar.stop[i-1]+1):ar.stop[i] []\T1/ptm/m/n/10 of the rows se-le cted by []\T1/pcr/m/n/10 ar.row [3274] [3275] [3276] [3277] Overfull \hbox (20.58041pt too wide) in paragraph at lines 17977--17977 []\T1/pcr/m/n/9 ## 1. If the zero inflation rate becomes decoupled from the li near predictor,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 17978--17978 []\T1/pcr/m/n/9 ## it is possible for the linear predictor to be almost unboun ded in regions[] Overfull \hbox (25.98041pt too wide) in paragraph at lines 17990--17990 []\T1/pcr/m/n/9 ## 3. Refit fixing the theta parameters at their estimated val ues, to check we[] [3278] [3279] [3280]) (./nlme-pkg.tex Chapter 25. [3281] Underfull \hbox (badness 1009) in paragraph at lines 78--87 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3282] Underfull \hbox (badness 1009) in paragraph at lines 168--177 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3283] [3284] [3285] [3286] Overfull \hbox (4.38043pt too wide) in paragraph at lines 448--448 [] \T1/pcr/m/n/9 lme(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3287] [3288] [3289] Overfull \hbox (20.58041pt too wide) in paragraph at lines 589--589 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 251-254 --------------------------- ---------------[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 605--605 []\T1/pcr/m/n/9 # Compare an "lme" object with a "gls" object (test would be n on-sensical!)[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 608--608 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 222-225 --------------------------- ---------------[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 615--615 []\T1/pcr/m/n/9 ## Pinheiro and Bates, pp. 352-365 --------------------------- ---------------[] [3290] [3291] [3292] [3293] [3294] [3295] [3296] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1078--1078 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxil lary fissure"),[] [3297] [3298] Underfull \hbox (badness 5446) in paragraph at lines 1140--1142 []\T1/ptm/m/n/10 `[]\T1/pcr/m/n/10 http://stat.gamma.rug.nl/snijders/multilevel .htm[]\T1/ptm/m/n/10 ', the first edi-tion of [3299] [3300] [3301] [3302] [3303] [3304] [3305] Underfull \hbox (badness 10000) in paragraph at lines 1617--1620 [][][]\T1/pcr/m/n/10 lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 fixed. effects.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 ranef.lmList[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.ranef.lmList[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 3780) in paragraph at lines 1634--1636 []\T1/ptm/m/n/10 This method func-tion ex-tracts the co-ef-fi-cients as-so-ci-a ted with each com-po-nent of the [3306] [3307] [3308] [3309] [3310] Underfull \hbox (badness 2042) in paragraph at lines 1975--1981 \T1/ptm/m/n/10 is in-ner to the []\T1/pcr/m/n/10 displayLevel []\T1/ptm/m/n/10 group-ing fac-tor. If equal to []\T1/pcr/m/n/10 TRUE[]\T1/ptm/m/n/10 , [3311] [3312] Underfull \hbox (badness 1132) in paragraph at lines 2127--2129 []\T1/ptm/m/n/10 fitted model ob-jects, from which pre-dic-tions can be ex-trac ted us-ing the [3313] [3314] Underfull \hbox (badness 4168) in paragraph at lines 2238--2244 [][][]\T1/pcr/m/n/10 ACF.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corAR MA[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 Dim.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [3315] Overfull \hbox (4.38043pt too wide) in paragraph at lines 2263--2263 [] \T1/pcr/m/n/9 gls(rate ~(pressure + I(pressure^2) + I(pressure^3) + I(pres sure^4))*QB,[] [3316] [3317] [3318] [3319] [3320] [3321] [3322] [3323] Underfull \hbox (badness 10000) in paragraph at lines 2816--2820 [][][]\T1/pcr/m/n/10 corFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cor Matrix.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 recalc.corStruct[ ][][][]\T1/ptm/m/n/10 , [3324] [3325] [3326] [3327] [3328] [3329] [3330] [3331] [3332] [3333] [3334] [3335] Underfull \hbox (badness 6493) in paragraph at lines 3548--3556 [][][]\T1/pcr/m/n/10 corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corGau s[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corLin[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 corSp her[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T 1/ptm/m/n/10 , [3336] [3337] [3338] [3339] [3340] [3341] [3342] [3343] [3344] [3345] [3346] [3347] [3348] [3349] [3350] [3351] [3352] [3353] [3354] [3355] [3356] [3357] [3358] Underfull \hbox (badness 10000) in paragraph at lines 5116--5120 [][][]\T1/pcr/m/n/10 getCovariate.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/p cr/m/n/10 getCovariate.data.frame[][][][]\T1/ptm/m/n/10 , [3359] [3360] [3361] [3362] [3363] [3364] [3365] Underfull \hbox (badness 10000) in paragraph at lines 5540--5543 [][][]\T1/pcr/m/n/10 getGroups.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/ m/n/10 getGroups.data.frame[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 getGro ups.gls[][][][]\T1/ptm/m/n/10 , [3366] [3367] [3368] [3369] [3370] [3371] [3372] [3373] [3374] Underfull \hbox (badness 2799) in paragraph at lines 6044--6050 \T1/ptm/m/n/10 covariance ma-trix, ei-ther []\T1/pcr/m/n/10 "random.effects" [] \T1/ptm/m/n/10 for the random-effects [3375] Underfull \hbox (badness 7133) in paragraph at lines 6105--6109 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3376] Underfull \hbox (badness 2057) in paragraph at lines 6194--6205 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gl sControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 glsObject[][][][]\T1/ptm/ m/n/10 , [][][]\T1/pcr/m/n/10 glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 plot.gls[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.gls[][][][] \T1/ptm/m/n/10 , [3377] Underfull \hbox (badness 10000) in paragraph at lines 6258--6260 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3378] [3379] [3380] [3381] Underfull \hbox (badness 7133) in paragraph at lines 6505--6509 []\T1/ptm/m/n/10 an op-tional data frame con-tain-ing the vari-ables named in [ ]\T1/pcr/m/n/10 model[]\T1/ptm/m/n/10 , [3382] Underfull \hbox (badness 10000) in paragraph at lines 6602--6608 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gn lsControl[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsObject[][][][]\T1/pt m/m/n/10 , [][][]\T1/pcr/m/n/10 gnlsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pc r/m/n/10 predict.gnls[][][][]\T1/ptm/m/n/10 , Overfull \hbox (54.78088pt too wide) in paragraph at lines 6629--6629 []\T1/pcr/m/n/10 gnlsControl(maxIter = 50, nlsMaxIter = 7, msMaxIter = 50, min Scale = 0.001, [3383] Underfull \hbox (badness 10000) in paragraph at lines 6667--6669 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3384] [3385] [3386] [3387] Underfull \hbox (badness 10000) in paragraph at lines 6936--6943 [][][]\T1/pcr/m/n/10 formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gappl y[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 gsummary[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nff GroupedData[][][][]\T1/ptm/m/n/10 , [3388] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6954--6954 [] \T1/pcr/m/n/9 y = "Distance from pituitary to pterygomaxilla ry fissure" ),[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 6959--6959 []\T1/pcr/m/n/9 fm1 <- lme( Orth.new ) # fixed and groups formulae extracted from object[] Underfull \hbox (badness 2875) in paragraph at lines 6981--6983 []\T1/ptm/m/n/10 an ob-ject to be sum-ma-rized - usu-ally a []\T1/pcr/m/n/10 gr oupedData []\T1/ptm/m/n/10 ob-ject or a [3389] [3390] [3391] Underfull \hbox (badness 10000) in paragraph at lines 7196--7202 [][][]\T1/pcr/m/n/10 Initialize.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr /m/n/10 Initialize.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initi alize.lmeStruct[][][][]\T1/ptm/m/n/10 , [3392] [3393] [3394] Underfull \hbox (badness 1997) in paragraph at lines 7341--7349 []\T1/ptm/m/n/10 an op-tional list with con-trol pa-ram-e-ters for the ini-tial -iza-tion and op-ti- Underfull \hbox (badness 2205) in paragraph at lines 7341--7349 \T1/ptm/m/n/10 miza-tion al-go-rithms used in []\T1/pcr/m/n/10 lme[]\T1/ptm/m/n /10 . De-faults to []\T1/pcr/m/n/10 list(niterEM=20, Underfull \hbox (badness 3118) in paragraph at lines 7364--7367 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initializ e.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.corStruct[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Initialize.varFunc[][][][]\T1/ptm/m/ n/10 , [3395] [3396] [3397] Underfull \hbox (badness 3354) in paragraph at lines 7574--7576 []\T1/ptm/m/n/10 linear model co-ef-fi-cients, only present when []\T1/pcr/m/n/ 10 which []\T1/ptm/m/n/10 is not equal to [3398] [3399] [3400] [3401] [3402] [3403] [3404] [3405] Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 corClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lm e.lmList[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lme.groupedData[][][][]\T 1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmeControl[][][][]\T1/ptm/m/n/10 , [][][]\T 1/pcr/m/n/10 lmeObject[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 8101--8118 [][][]\T1/pcr/m/n/10 lmeStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 lmL ist[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/pcr/m/n/10 plot.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 predict.lme[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 qqnorm.lme[][][][]\T1/ ptm/m/n/10 , [3406] Overfull \hbox (12.78088pt too wide) in paragraph at lines 8144--8144 [] \T1/pcr/m/n/10 subset, method, na.action, control, contrasts, keep.data = TRUE)[] Underfull \hbox (badness 1642) in paragraph at lines 8153--8175 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a one-sided for-mula o f the form [3407] [3408] [3409] [3410] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8418--8418 []\T1/pcr/m/n/10 lmeControl(maxIter = 50, msMaxIter = 50, tolerance = 1e-6, ni terEM = 25, Underfull \hbox (badness 1189) in paragraph at lines 8443--8445 []\T1/ptm/m/n/10 maximum num-ber of eval-u-a-tions of the ob-jec-tive func-tion per-mit-ted for [3411] Underfull \hbox (badness 10000) in paragraph at lines 8466--8468 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is Overfull \hbox (9.78043pt too wide) in paragraph at lines 8509--8509 []\T1/pcr/m/n/9 # request that information on the evolution of the ms iteratio ns be printed[] [3412] [3413] [3414] [3415] [3416] [3417] [3418] [3419] [3420] [3421] [3422] [3423] Underfull \hbox (badness 10000) in paragraph at lines 9266--9273 [][][]\T1/pcr/m/n/10 lme[][][][]\T1/ptm/m/n/10 ,[][][]\T1/pcr/m/n/10 gls[][][][ ]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.corStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 logLik.glsStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 logLik.lmeStruct[][][][]\T1/ptm/m/n/10 , Overfull \hbox (4.38043pt too wide) in paragraph at lines 9277--9277 []\T1/pcr/m/n/9 fm1 <- lme(distance ~ Sex * age, Orthodont, random = ~ age, me thod = "ML") [3424] [3425] [3426] [3427] [3428] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix}) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Matrix.1} ) has been already used, duplicate ignored \relax l.9628 ...rA{Matrix}{Assign Matrix Values}{Matrix} [3429] Underfull \hbox (badness 10000) in paragraph at lines 9648--9651 []\T1/ptm/m/n/10 a ma-trix, or list of ma-tri-ces, with the same di-men-sions a s Underfull \hbox (badness 3108) in paragraph at lines 9692--9695 []\T1/ptm/m/n/10 a ma-trix with the new val-ues to be as-signed to the positive -definite Underfull \hbox (badness 2521) in paragraph at lines 9692--9695 \T1/ptm/m/n/10 ma-trix rep-re-sented by []\T1/pcr/m/n/10 object[]\T1/ptm/m/n/10 . Must have the same di-men-sions as [3430] [3431] [3432] [3433] [3434] [3435] [3436] [3437] [3438] [3439] [3440] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10362--10362 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights, [3441] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10366--10366 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] Underfull \hbox (badness 1596) in paragraph at lines 10395--10421 []\T1/ptm/m/n/10 optionally, any of the fol-low-ing: (i) a two-sided for-mula o f the form [3442] [3443] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10549--10549 []\T1/pcr/m/n/10 nlme(model, data, fixed, random, groups, start, correlation, weights,[] [3444] [3445] [3446] Overfull \hbox (36.78088pt too wide) in paragraph at lines 10700--10700 [] \T1/pcr/m/n/10 opt = c("nlminb", "nlm"), natural = TRUE, sigma = NULL, ...)[] Underfull \hbox (badness 2213) in paragraph at lines 10711--10716 []\T1/ptm/m/n/10 maximum num-ber of it-er-a-tions for [][][]\T1/pcr/m/n/10 nlmi nb[][][] []\T1/ptm/m/n/10 ([]\T1/pcr/m/n/10 iter.max[]\T1/ptm/m/n/10 ) or the [ ][][]\T1/pcr/m/n/10 nlm[][][] Underfull \hbox (badness 6961) in paragraph at lines 10733--10737 []\T1/ptm/m/n/10 a log-i-cal value passed as the []\T1/pcr/m/n/10 trace []\T1/p tm/m/n/10 to [][][]\T1/pcr/m/n/10 nlminb[][][](.., control= [3447] Underfull \hbox (badness 10000) in paragraph at lines 10752--10754 []\T1/ptm/m/n/10 relative step for nu-mer-i-cal deriva-tives cal-cu-la-tions. D e-fault is [3448] [3449] [3450] [3451] Overfull \hbox (96.18033pt too wide) in paragraph at lines 11048--11048 []\T1/pcr/m/n/9 cfm1 <- confint(fm1) # via profiling each % FIXME: only *one* message instead of one *each*[] Overfull \hbox (90.78033pt too wide) in paragraph at lines 11049--11049 []\T1/pcr/m/n/9 mat.class <- class(matrix(1)) # ("matrix", "array") for R >= 4 .0.0; ("matrix" in older R)[] [3452] [3453] [3454] [3455] [3456] [3457] Overfull \hbox (25.98041pt too wide) in paragraph at lines 11439--11439 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3458] [3459] [3460] [3461] [3462] [3463] Underfull \hbox (badness 6268) in paragraph at lines 11826--11836 [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdMatrix[][][][]\T1/ptm/m/n/10 , [3464] [3465] [3466] [3467] Underfull \hbox (badness 10000) in paragraph at lines 12087--12093 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 coef.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdBlocked[][][][]\T1 /ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/ pcr/m/n/10 pdConstruct[][][][]\T1/ptm/m/n/10 , [3468] [3469] [3470] [3471] [3472] Underfull \hbox (badness 6876) in paragraph at lines 12409--12411 []\T1/ptm/m/n/10 If []\T1/pcr/m/n/10 value []\T1/ptm/m/n/10 is an \T1/ptm/m/it/ 10 ini-tial-ized []\T1/pcr/m/n/10 pdMat []\T1/ptm/m/n/10 ob-ject, []\T1/pcr/m/n /10 object []\T1/ptm/m/n/10 will be con-structed from [3473] [3474] Underfull \hbox (badness 2452) in paragraph at lines 12565--12572 [][][]\T1/pcr/m/n/10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdC ompSymm[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdDiag[][][][]\T1/ptm/m/n/ 10 , [][][]\T1/pcr/m/n/10 pdIdent[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdNatural[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdSymm[][][][]\T1/ptm/m/ n/10 , [][][]\T1/pcr/m/n/10 reStruct[][][][]\T1/ptm/m/n/10 , [3475] Underfull \hbox (badness 10000) in paragraph at lines 12631--12637 [][][]\T1/pcr/m/n/10 as.matrix.pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 pdClasses[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdFactor[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 pdMatrix.reStruct[][][][]\T1/ptm/m/n/10 , [3476] [3477] [3478] [3479] [3480] [3481] [3482] [3483] [3484] Overfull \hbox (25.98041pt too wide) in paragraph at lines 13220--13220 []\T1/pcr/m/n/9 example(compareFits) # cF12 <- compareFits(coef(lmList(Orthodo nt)), .. lme(*)) [3485] [3486] [3487] [3488] [3489] Overfull \hbox (9.78043pt too wide) in paragraph at lines 13585--13585 []\T1/pcr/m/n/9 plot(fm1, resid(., type = "pool") ~ fitted(.) | Sex, abline = 0, id = 0.05)[] [3490] Underfull \hbox (badness 10000) in paragraph at lines 13612--13615 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nffGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3491] Underfull \hbox (badness 1838) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 an op-tional log-i-cal func-tion or func-tion. If []\T1/pcr/m/ n/10 TRUE []\T1/ptm/m/n/10 and ei-ther []\T1/pcr/m/n/10 inner Underfull \hbox (badness 3713) in paragraph at lines 13655--13662 []\T1/ptm/m/n/10 or []\T1/pcr/m/n/10 innerGroups []\T1/ptm/m/n/10 are non-[]\T1 /pcr/m/n/10 NULL[]\T1/ptm/m/n/10 , a leg-end for the dif-fer-ent []\T1/pcr/m/n/ 10 inner Overfull \hbox (12.78088pt too wide) in paragraph at lines 13712--13712 []\T1/pcr/m/n/10 plot(x, outer, inner, innerGroups, xlab, ylab, strip, aspect, panel,[] [3492] Underfull \hbox (badness 10000) in paragraph at lines 13719--13722 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nfnGroupe dData[]\T1/ptm/m/n/10 , rep-re-sent-ing a Underfull \hbox (badness 2469) in paragraph at lines 13719--13722 []\T1/pcr/m/n/10 groupedData []\T1/ptm/m/n/10 ob-ject with a nu-meric pri-mary co-vari-ate and a sin-gle [3493] Underfull \hbox (badness 10000) in paragraph at lines 13827--13830 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 nmGrouped Data[]\T1/ptm/m/n/10 , rep-re-sent-ing a [3494] [3495] Underfull \hbox (badness 10000) in paragraph at lines 13921--13923 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 c ollapse.groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 plot.nfnGroupe dData[][][][]\T1/ptm/m/n/10 , [3496] [3497] [3498] [3499] [3500] [3501] [3502] [3503] Overfull \hbox (20.58041pt too wide) in paragraph at lines 14445--14445 []\T1/pcr/m/n/9 newOrth <- data.frame(Sex = c("Male","Male","Female","Female", "Male","Male"),[] [3504] [3505] [3506] [3507] [3508] [3509] [3510] [3511] [3512] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.random.ef fects.1}) has been already used, duplicate ignored \relax l.15098 ...Extract Random Effects}{random.effects} [3513] [3514] [3515] [3516] [3517] [3518] [3519] [3520] [3521] [3522] [3523] Overfull \hbox (25.98041pt too wide) in paragraph at lines 15734--15734 []\T1/pcr/m/n/9 plot(Remifentanil, type = "l", lwd = 2) # shows the 65 patient s\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 remi profiles [3524] Underfull \hbox (badness 1009) in paragraph at lines 15786--15795 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3525] [3526] Overfull \hbox (66.78088pt too wide) in paragraph at lines 15933--15933 [] \T1/pcr/m/n/10 type = c("response", "pearson", "normalized"), asLi st = FALSE, ...)[] [3527] [3528] [3529] [3530] [3531] Underfull \hbox (badness 10000) in paragraph at lines 16268--16274 [][][]\T1/pcr/m/n/10 groupedData[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 l me[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 pdMat[][][][]\T1/ptm/m/n/10 , [ ][][]\T1/pcr/m/n/10 solve.reStruct[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 summary.reStruct[][][][]\T1/ptm/m/n/10 , [3532] Overfull \hbox (18.78088pt too wide) in paragraph at lines 16300--16300 [] \T1/pcr/m/n/10 method = c("REML", "ML"), niterEM = c(40, 200), useG en, ...)[] [3533] [3534] [3535] [3536] [3537] [3538] [3539] Underfull \hbox (badness 1728) in paragraph at lines 16786--16789 []\T1/ptm/m/n/10 an op-tional log-i-cal value used to con-trol the amount of ou t-put in the [3540] [3541] [3542] [3543] [3544] Underfull \hbox (badness 1803) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 of an Identity" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdIdent[]\ T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Positive-Definite, Underfull \hbox (badness 10000) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Natural Parametrization" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 p dNatural[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "General Underfull \hbox (badness 7888) in paragraph at lines 17120--17129 \T1/pcr/m/n/10 Positive-Definite" []\T1/ptm/m/n/10 for []\T1/pcr/m/n/10 pdSymm[ ]\T1/ptm/m/n/10 , and []\T1/pcr/m/n/10 data.class(object) [3545] Underfull \hbox (badness 10000) in paragraph at lines 17191--17192 []\T1/pcr/m/n/10 "Constant plus power of variance Underfull \hbox (badness 10000) in paragraph at lines 17192--17193 []\T1/pcr/m/n/10 "Constant plus proportion of variance [3546] [3547] [3548] [3549] Underfull \hbox (badness 10000) in paragraph at lines 17441--17449 [][][]\T1/pcr/m/n/10 varComb[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varCo nstPower[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varConstProp[][][][]\T1/p tm/m/n/10 , [][][]\T1/pcr/m/n/10 varExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 varFixed[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 varIdent[][][][]\T1 /ptm/m/n/10 , [3550] [3551] [3552] [3553] Overfull \hbox (4.38043pt too wide) in paragraph at lines 17713--17713 []\T1/pcr/m/n/9 # Generate some synthetic data using the two-component error m odel and use Overfull \hbox (25.98041pt too wide) in paragraph at lines 17715--17715 []\T1/pcr/m/n/9 # overparameterisation in the case of a constant term in the v ariance function[] [3554] [3555] [3556] [3557] [3558] [3559] Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n /10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rLin[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18153--18163 [][][]\T1/pcr/m/n/10 Variogram.corRatio[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m /n/10 Variogram.corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogr am.corSpher[][][][]\T1/ptm/m/n/10 , [3560] Underfull \hbox (badness 3579) in paragraph at lines 18185--18190 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3561] Underfull \hbox (badness 3579) in paragraph at lines 18249--18254 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3562] Underfull \hbox (badness 3579) in paragraph at lines 18312--18317 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3563] Underfull \hbox (badness 1577) in paragraph at lines 18373--18375 []\T1/ptm/m/n/10 an ob-ject in-her-it-ing from class []\T1/pcr/m/n/10 "[][]corR atio[][][]"[]\T1/ptm/m/n/10 , rep-re-sent-ing an Ra-tio-nal Underfull \hbox (badness 3579) in paragraph at lines 18375--18380 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3564] Underfull \hbox (badness 3579) in paragraph at lines 18438--18443 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 corSpatial[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Va riogram[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.default[][][][]\ T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.corExp[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 18471--18480 [][][]\T1/pcr/m/n/10 Variogram.corGaus[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/ n/10 Variogram.corLin[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Variogram.co rRatio[][][][]\T1/ptm/m/n/10 , [3565] Underfull \hbox (badness 3579) in paragraph at lines 18510--18515 \T1/ptm/m/n/10 is to be cal-cu-lated. De-faults to []\T1/pcr/m/n/10 NULL[]\T1/p tm/m/n/10 , in which case a se-quence [3566] [3567] Underfull \hbox (badness 1009) in paragraph at lines 18656--18665 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3568] [3569] Underfull \hbox (badness 1009) in paragraph at lines 18788--18797 []\T1/pcr/m/n/10 "response"[]\T1/ptm/m/n/10 , the "raw" resid-u-als (ob-served - fit-ted) are used; else, if [3570] [3571] [3572] [3573] [3574] [3575] [3576] [3577] [3578]) (./nnet-pkg.tex Chapter 26. pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom} ) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.multinom. 1}) has been already used, duplicate ignored \relax l.47 ...t Multinomial Log-linear Models}{multinom} [3579] Overfull \hbox (12.78088pt too wide) in paragraph at lines 71--71 [] \T1/pcr/m/n/10 contrasts = NULL, Hess = FALSE, summ = 0, censored = FALSE,[] [3580] [3581] [3582] Overfull \hbox (15.18042pt too wide) in paragraph at lines 374--374 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3583] Overfull \hbox (4.38043pt too wide) in paragraph at lines 431--431 []\T1/pcr/m/n/9 targets <- matrix(c(rep(c(1,0,0),50), rep(c(0,1,0),50), rep(c( 0,0,1),50)),[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 434--434 []\T1/pcr/m/n/9 ir1 <- nnet(ir[samp,], targets[samp,], size=2, rang=0.1, decay =5e-4, maxit=200)[] [3584] [3585] Overfull \hbox (15.18042pt too wide) in paragraph at lines 514--514 []\T1/pcr/m/n/9 ir.nn2 <- nnet(species ~ ., data = ird, subset = samp, size = 2, rang = 0.1,[] [3586]) (./rpart-pkg.tex Chapter 27. [3587] [3588] [3589] [3590] Overfull \hbox (36.78088pt too wide) in paragraph at lines 324--324 []\T1/pcr/m/n/10 labels(object, digits = 4, minlength = 1L, pretty, collapse = TRUE, ...)[] [3591] Underfull \hbox (badness 2351) in paragraph at lines 349--353 \T1/ptm/m/n/10 age: []\T1/pcr/m/n/10 pretty = 0 []\T1/ptm/m/n/10 im-plies []\T1 /pcr/m/n/10 minlength = 0L[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 pretty = NULL []\ T1/ptm/m/n/10 im-plies [3592] [3593] [3594] Underfull \hbox (badness 1442) in paragraph at lines 592--598 []\T1/ptm/m/n/10 if []\T1/pcr/m/n/10 FALSE[]\T1/ptm/m/n/10 , the leaf nodes wil l be at the hor-i-zon-tal plot co-or-di-nates of [3595] [3596] Overfull \hbox (0.78088pt too wide) in paragraph at lines 738--738 [] \T1/pcr/m/n/10 filename = paste(deparse(substitute(tree)), ".ps", sep = ""),[] Underfull \hbox (badness 10000) in paragraph at lines 771--775 []\T1/ptm/m/n/10 Logical. If []\T1/pcr/m/n/10 TRUE []\T1/ptm/m/n/10 (de-fault), adds to the la-bel Underfull \hbox (badness 1142) in paragraph at lines 771--775 \T1/pcr/m/n/10 #events level1/ #events level2/ \T1/ptm/m/n/10 etc. for method [ ]\T1/pcr/m/n/10 class[]\T1/ptm/m/n/10 , \T1/pcr/m/n/10 n [3597] [3598] [3599] Overfull \hbox (25.98041pt too wide) in paragraph at lines 915--915 []\T1/pcr/m/n/9 predict(fit, type = "matrix") # level number, class frequencie s, probabilities[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 934--934 []\T1/pcr/m/n/10 print(x, minlength = 0, spaces = 2, cp, digits = getOption("d igits"),[] [3600] [3601] [3602] [3603] Overfull \hbox (6.78088pt too wide) in paragraph at lines 1180--1180 []\T1/pcr/m/n/10 rpart(formula, data, weights, subset, na.action = na.rpart, m ethod, Overfull \hbox (12.78088pt too wide) in paragraph at lines 1181--1181 [] \T1/pcr/m/n/10 model = FALSE, x = FALSE, y = TRUE, parms, control, cos t, ...)[] Underfull \hbox (badness 2846) in paragraph at lines 1243--1245 []\T1/ptm/m/n/10 a list of op-tions that con-trol de-tails of the []\T1/pcr/m/n /10 rpart []\T1/ptm/m/n/10 al-go-rithm. See [3604] Overfull \hbox (20.58041pt too wide) in paragraph at lines 1287--1287 []\T1/pcr/m/n/9 par(mfrow = c(1,2), xpd = NA) # otherwise on some devices the text is clipped[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 1303--1303 []\T1/pcr/m/n/10 rpart.control(minsplit = 20, minbucket = round(minsplit/3), c p = 0.01, Overfull \hbox (60.78088pt too wide) in paragraph at lines 1304--1304 [] \T1/pcr/m/n/10 maxcompete = 4, maxsurrogate = 5, usesurrogate = 2, xval = 10,[] [3605] [3606] [3607] [3608] [3609] [3610] [3611] Underfull \hbox (badness 1565) in paragraph at lines 1760--1763 []\T1/ptm/m/n/10 the ploidy sta-tus of the tu-mor, from flow cy-tom-e-try. Val- ues are `[]\T1/pcr/m/n/10 diploid[]\T1/ptm/m/n/10 ', [3612] Overfull \hbox (12.78088pt too wide) in paragraph at lines 1854--1854 [] \T1/pcr/m/n/10 pretty = NULL, digits = getOption("digits") - 3, use.n = FALSE,[] [3613] [3614] [3615]) (./spatial-pkg.tex [3616] Chapter 28. [3617] [3618] [3619] [3620] [3621] [3622] Underfull \hbox (badness 10000) in paragraph at lines 420--424 [3623] [3624] [3625] [3626] [3627] [3628] [3629] [3630] [3631] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo}) ha s been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.topo.1}) has been already used, duplicate ignored \relax l.1039 ...rA{topo}{Spatial Topographic Data}{topo} [3632] [3633] [3634] [3635] [3636]) (./survival-pkg.tex Chapter 29. [3637] [3638] Overfull \hbox (31.3804pt too wide) in paragraph at lines 173--173 []\T1/pcr/m/n/9 aareg(formula = Surv(time, status) ~ age + sex + ph.ecog, data = lung, nmin = 1[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 192--192 []\T1/pcr/m/n/9 ## Not run: lines(lfit2[4], col=2) # Nearly the same, until t he last point[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 195--195 []\T1/pcr/m/n/9 # Chronic Granuomatous Disease. See section 8.5 of Therneau a nd Grambsch.[] [3639] [3640] Underfull \hbox (badness 6412) in paragraph at lines 284--286 []\T1/ptm/m/n/10 an op-tional list or vec-tor of group-ing el-e-ments, each as long as [3641] [3642] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml}) has been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.aml.1}) h as been already used, duplicate ignored \relax l.384 ... Myelogenous Leukemia survival data}{aml} [3643] Overfull \hbox (9.78043pt too wide) in paragraph at lines 491--491 []\T1/pcr/m/n/9 fit <- coxph(Surv(futime, fustat) ~ resid.ds *rx + ecog.ps, da ta = ovarian) Overfull \hbox (4.38043pt too wide) in paragraph at lines 493--493 []\T1/pcr/m/n/9 fit2 <- coxph(Surv(futime, fustat) ~ resid.ds +rx + ecog.ps, d ata=ovarian)[] [3644] Overfull \hbox (6.78088pt too wide) in paragraph at lines 525--525 [] \T1/pcr/m/n/10 survreg(Surv(time, status) ~ age + sex + factor(ph.ecog), lung)[] [3645] Underfull \hbox (badness 1178) in paragraph at lines 605--615 []\T1/ptm/m/n/10 If H(t; z) is the pre-dicted cu-mu-la-tive haz-ard for an ob-s er-va-tion with co-vari-ate vec-tor z, [3646] [3647] [3648] Overfull \hbox (20.58041pt too wide) in paragraph at lines 798--798 []\T1/pcr/m/n/9 py <- pseudo(survfit(Surv(time, status) ~1, lung), time=730) # 2 year survival Overfull \hbox (30.78088pt too wide) in paragraph at lines 814--814 []\T1/pcr/m/n/10 brier(fit, times, newdata, ties = TRUE, detail = FALSE, timef ix = TRUE, [3649] [3650] Overfull \hbox (48.78088pt too wide) in paragraph at lines 897--897 [] \T1/pcr/m/n/10 method =c("Prentice","SelfPrentice","LinYing","I.Borgan", "II.Borgan"),[] [3651] [3652] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1040--1040 [] \T1/pcr/m/n/9 subcoh = ~subcohort, id=~seqno, stratum=~instit, cohort.siz e=stratsizes,[] [3653] [3654] Underfull \hbox (badness 1097) in paragraph at lines 1219--1221 []\T1/ptm/m/n/10 F.J. Anscombe (1949). Trans-for-ma-tions of Pois-son, bi-no-mi al and negative-binomial data. [3655] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1239--1239 []\T1/pcr/m/n/9 ppois(4, 10.24153) #chance of seeing 4 or fewer events wit h large rate[] [3656] Overfull \hbox (31.3804pt too wide) in paragraph at lines 1356--1356 []\T1/pcr/m/n/9 ## Not run: clogit(case ~ spontaneous + induced + strata(strat um), data=infert) [3657] Overfull \hbox (15.18042pt too wide) in paragraph at lines 1417--1417 []\T1/pcr/m/n/9 marginal.model <- coxph(Surv(time, status) ~ rx, data= rats, c luster=litter, pdfTeX warning (ext4): destination with the same identifier (name{Rfn.colon}) h as been already used, duplicate ignored \relax l.1423 ...erapy for Stage B/C colon cancer}{colon} [3658] [3659] Overfull \hbox (72.78088pt too wide) in paragraph at lines 1527--1527 [] \T1/pcr/m/n/10 influence=0, ranks = FALSE, reverse=FALSE, timefix=TRUE, ke epstrata=10, ...)[] [3660] [3661] Underfull \hbox (badness 1242) in paragraph at lines 1658--1668 \T1/ptm/m/n/10 cor-re-sponds to Har-rell's C statis-tic, which is closely re-la ted to the Gehan-Wilcoxon test; [3662] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1765--1765 []\T1/pcr/m/n/9 options(na.action= na.exclude) # fit2a has many more missings, this causes[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1766--1766 [] \T1/pcr/m/n/9 # predict to return nrow(flchain) values, but has to be set b efore the fit[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1767--1767 []\T1/pcr/m/n/9 fit2a <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + log(creatinine), binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1768--1768 []\T1/pcr/m/n/9 fit2b <- glm(I(sex==\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 M\TS1/pcr/m/ n/9 '\T1/pcr/m/n/9 ) ~ age + kappa + lambda, binomial, data= flchain)[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 1772--1772 []\T1/pcr/m/n/9 coef(cfit) # males and females differ in creatinine, less in kappa/lambda[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 1779--1779 []\T1/pcr/m/n/9 options(na.action = na.exclude) # predict all 1384 obs, incl uding missing[] [3663] [3664] Overfull \hbox (18.78088pt too wide) in paragraph at lines 1873--1873 []\T1/pcr/m/n/10 cox.zph(fit, transform="km", terms=TRUE, singledf=FALSE, glob al=TRUE) [3665] [3666] [3667] [3668] Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 []\T1/ptm/m/n/10 One user mis-take that has re-cently arisen is to slav-ishly f ol-low the ad-vice of Underfull \hbox (badness 7486) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 some cod-ing guides and prepend []\T1/pcr/m/n/10 survival:: []\T 1/ptm/m/n/10 onto ev-er-thing, in-clud-ing the spe- Underfull \hbox (badness 10000) in paragraph at lines 2196--2201 \T1/ptm/m/n/10 cial terms, e.g., []\T1/pcr/m/n/10 survival::coxph(survival:Surv (time, status) ~ age + [3669] [3670] Underfull \hbox (badness 3861) in paragraph at lines 2315--2319 [][][]\T1/pcr/m/n/10 coxph.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxphms.object[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 coxph.control[][][] []\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 cluster[][][][]\T1/ptm/m/n/10 , [][][]\ T1/pcr/m/n/10 strata[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 Surv[][][][]\ T1/ptm/m/n/10 , [3671] Overfull \hbox (6.78088pt too wide) in paragraph at lines 2370--2370 []\T1/pcr/m/n/10 iter.max = 20, toler.inf = sqrt(eps), outer.max = 10, timefix =TRUE,[] [3672] [3673] [3674] [3675] [3676] [3677] [3678] [3679] [3680] Overfull \hbox (4.38043pt too wide) in paragraph at lines 3024--3024 [] \T1/pcr/m/n/9 [1] "extreme" "logistic" "gaussian" "weibull" " exponential"[] Overfull \hbox (6.78088pt too wide) in paragraph at lines 3065--3065 []\T1/pcr/m/n/10 finegray(formula, data, weights, subset, na.action= na.pass, etype, [3681] [3682] [3683] [3684] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3317--3317 []\T1/pcr/m/n/10 frailty.t(x, sparse = (nclass > 5), theta, df, eps = 1e-05, t df = 5,[] [3685] [3686] Overfull \hbox (24.78088pt too wide) in paragraph at lines 3459--3459 []\T1/pcr/m/n/10 fromtimeline(formula, data, subset, id, repeated = FALSE, lvc f = TRUE, [3687] [3688] [3689] Underfull \hbox (badness 1019) in paragraph at lines 3666--3668 []\T1/ptm/m/n/10 outcome: []\T1/pcr/m/n/10 censor[]\T1/ptm/m/n/10 , []\T1/pcr/m /n/10 thymic lymphoma[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 reticulum cell sarcoma other [3690] [3691] [3692] Overfull \hbox (15.18042pt too wide) in paragraph at lines 3819--3819 []\T1/pcr/m/n/9 kfit <- coxph(Surv(time, status)~ age + sex + disease + frailt y(id), kidney) Overfull \hbox (36.7804pt too wide) in paragraph at lines 3854--3854 [] \T1/pcr/m/n/9 factor(c(0, 1, 2,1,0,2), 0:2, c("censored", "progre ssion", "death")))[] Underfull \hbox (badness 1389) in paragraph at lines 3868--3870 []\T1/ptm/m/n/10 Often used to add the ex-pected sur-vival curve(s) to a Kaplan -Meier plot gen-er-ated with [3693] Overfull \hbox (12.78088pt too wide) in paragraph at lines 3879--3879 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "ar csin"),[] [3694] [3695] Overfull \hbox (36.7804pt too wide) in paragraph at lines 4020--4020 [] \T1/pcr/m/n/9 rmap=list(sex=sex, age=age*365.35, year=as.Da te(\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 1979/01/01\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3696] [3697] Overfull \hbox (467.89665pt too wide) in alignment at lines 4159--4159 [] [] [3698] [3699] [3700] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4373--4373 []\T1/pcr/m/n/9 # surprise) but their rates of conversion to PCM are essential ly the same.[] [3701] [3702] [3703] [3704] [3705] [3706] [3707] [3708] Overfull \hbox (4.38043pt too wide) in paragraph at lines 4849--4849 [] \T1/pcr/m/n/9 entry.dt = as.Date(paste("2011", 1:10, "5" , sep=\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 -\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )))[] [3709] [3710] [3711] Overfull \hbox (15.18042pt too wide) in paragraph at lines 5044--5044 []\T1/pcr/m/n/9 tdata <- data.frame(x= lung$age, y = 10*log(lung$age-35) + rno rm(228, 0, 2))[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5049--5049 []\T1/pcr/m/n/9 knots <- unlist(attributes(fit1$model[[2]])[c(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 Boundary.knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 , \TS1/pcr/m/n/9 '\T1 /pcr/m/n/9 knots\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )])[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 5053--5053 []\T1/pcr/m/n/9 unname(coef(fit1)[-1] - coef(fit1)[1]) # differences: yhat[2: 4] - yhat[1][] [3712] [3713] [3714] [3715] [3716] [3717] [3718] Overfull \hbox (0.78088pt too wide) in paragraph at lines 5500--5500 [] \T1/pcr/m/n/10 pch=3, col=1, lty=1, lwd=1, cex=1, log=FALSE, xscale=1, ysca le=1,[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 5504--5504 [] \T1/pcr/m/n/10 conf.type = c("log", "log-log", "plain", "logit", "arcsin", "none"),[] [3719] [3720] Underfull \hbox (badness 2608) in paragraph at lines 5626--5637 []\T1/ptm/m/n/10 One of []\T1/pcr/m/n/10 "plain"[]\T1/ptm/m/n/10 , []\T1/pcr/m/ n/10 "log" []\T1/ptm/m/n/10 (the de-fault), []\T1/pcr/m/n/10 "log-log"[]\T1/ptm /m/n/10 , []\T1/pcr/m/n/10 "logit"[]\T1/ptm/m/n/10 , or [3721] Overfull \hbox (24.78088pt too wide) in paragraph at lines 5742--5742 []\T1/pcr/m/n/10 se.fit=FALSE, na.action=na.pass, terms=names(object$assign), collapse,[] [3722] [3723] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5898--5898 []\T1/pcr/m/n/9 mresid <- (lung$status-1) - predict(fit, type=\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 expected\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 ) #Martingale resid[] [3724] Overfull \hbox (9.78043pt too wide) in paragraph at lines 5906--5906 [] \T1/pcr/m/n/9 predict(fit, reference="sample") + sum(coef(fit) * fit$means , na.rm=TRUE)[] [3725] Overfull \hbox (25.98041pt too wide) in paragraph at lines 5992--5992 []\T1/pcr/m/n/9 pct <- 1:98/100 # The 100th percentile of predicted survival is at +infinity[] [3726] Overfull \hbox (6.78088pt too wide) in paragraph at lines 6071--6071 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), expand=FALSE , ...)[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6074--6074 [] \T1/pcr/m/n/10 signif.stars = getOption("show.signif.stars"), maxlabel=25, ...)[] [3727] Underfull \hbox (badness 1852) in paragraph at lines 6148--6150 []\T1/ptm/m/n/10 an ob-ject of class []\T1/pcr/m/n/10 "summary.survfit"[]\T1/pt m/m/n/10 , which is the re-sult of the [3728] [3729] [3730] [3731] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6402--6402 []\T1/pcr/m/n/9 rhat <- predict(rfit, newdata=expand.grid(ph.ecog=0:3, sex=1:2 ), se.fit=TRUE)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6414--6414 []\T1/pcr/m/n/9 # the estimate for ph.ecog=3 is very unstable (n=1), pseudoval ues smooth it.[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6416--6416 []\T1/pcr/m/n/9 # In all the above we should be using the robust variance, e.g ., svyglm, but[] Overfull \hbox (0.78088pt too wide) in paragraph at lines 6440--6440 []\T1/pcr/m/n/10 pspline(x, df=4, theta, nterm=2.5 * df, degree=3, eps=0.1, me thod, Overfull \hbox (36.78088pt too wide) in paragraph at lines 6441--6441 [] \T1/pcr/m/n/10 Boundary.knots=range(x), intercept=FALSE, penalty=TRUE, co mbine, ...)[] [3732] [3733] [3734] Overfull \hbox (30.78088pt too wide) in paragraph at lines 6604--6604 [] \T1/pcr/m/n/10 py <- pyears(futime ~ rx, rmap=list(age=age, sex=sex, year= entry.dt),[] [3735] Overfull \hbox (9.78043pt too wide) in paragraph at lines 6706--6706 []\T1/pcr/m/n/9 pfit <- pyears(Surv(ptime/365.25, pstat) ~ temp.yr + temp.age + sex, mgus,[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 6727--6727 []\T1/pcr/m/n/9 fit1 <- pyears(Surv(stop/365.25, event) ~ cut(age + 48, c(0,50 ,60,70,100)) +[] Overfull \hbox (20.58041pt too wide) in paragraph at lines 6729--6729 []\T1/pcr/m/n/9 fit2 <- pyears(Surv(stop/365.25, event) ~ tcut(age + 48, c(0,5 0,60,70,100)) +[] [3736] [3737] [3738] [3739] Underfull \hbox (badness 3780) in paragraph at lines 6968--6972 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3740] [3741] [3742] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7218--7218 []\T1/pcr/m/n/9 gfit <- survfit(Surv(day1, day2, status) ~ batch, braking, id= locomotive)[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7224--7224 []\T1/pcr/m/n/9 # natural target, an estimate of the number of replacements b y a given time[] [3743] Overfull \hbox (9.78043pt too wide) in paragraph at lines 7226--7226 []\T1/pcr/m/n/9 # When two valve seats failed at the same inspection, we need to jitter one[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 7228--7228 []\T1/pcr/m/n/9 ties <- which(with(valveSeat, diff(id)==0 & diff(time)==0)) # first of a tie[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7232--7232 []\T1/pcr/m/n/9 vdata$time1 <- ifelse(!duplicated(vdata$id), 0, c(0, temp[-len gth(temp)]))[] Overfull \hbox (12.78088pt too wide) in paragraph at lines 7259--7259 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfbe tas")),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 7265--7265 [] \T1/pcr/m/n/10 collapse=FALSE, weighted= (type %in% c("dfbeta", "dfb etas")),[] [3744] [3745] Overfull \hbox (36.78088pt too wide) in paragraph at lines 7396--7396 [] \T1/pcr/m/n/10 type="pstate", collapse=FALSE, weighted= collapse, data.f rame=FALSE,[] [3746] [3747] Overfull \hbox (6.78088pt too wide) in paragraph at lines 7495--7495 []\T1/pcr/m/n/10 residuals(object, type=c("response", "deviance","dfbeta","dfb etas",[] Underfull \hbox (badness 1043) in paragraph at lines 7507--7510 []\T1/pcr/m/n/10 "dfbetas"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "working"[]\T1/pt m/m/n/10 , []\T1/pcr/m/n/10 "ldcase"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "lsresp "[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "ldshape"[]\T1/ptm/m/n/10 , and [3748] [3749] [3750] [3751] Overfull \hbox (4.38043pt too wide) in paragraph at lines 7819--7819 []\T1/pcr/m/n/9 lfit1 <- survreg(Surv(time, status) ~ age + ridge(ph.ecog, the ta=5), lung)[] [3752] Overfull \hbox (31.3804pt too wide) in paragraph at lines 7820--7820 []\T1/pcr/m/n/9 lfit2 <- survreg(Surv(time, status) ~ sex + ridge(age, ph.ecog , theta=1), lung)[] [3753] Underfull \hbox (badness 3780) in paragraph at lines 7895--7899 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3754] [3755] Overfull \hbox (72.78088pt too wide) in paragraph at lines 8016--8016 []\T1/pcr/m/n/10 rttright(formula, data, weights, subset, na.action, times, id , timefix = TRUE, [3756] Overfull \hbox (42.18039pt too wide) in paragraph at lines 8099--8099 []\T1/pcr/m/n/9 cdf <- cdf[!duplicated(aml$time[index], fromLast=TRUE)] # rem ove duplicate times[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 8103--8103 []\T1/pcr/m/n/9 wt2 <- rttright(Surv(dtime, death) ~ hormon, rotterdam, times= 365*c(3, 5))[] pdfTeX warning (ext4): destination with the same identifier (name{Rfn.solder}) has been already used, duplicate ignored \relax l.8107 ...ata from a soldering experiment}{solder} [3757] Overfull \hbox (4.38043pt too wide) in paragraph at lines 8168--8168 []\T1/pcr/m/n/9 dummy <- expand.grid(Opening= c("S", "M", "L"), Solder=c("Thin ", "Thick"))[] Overfull \hbox (36.7804pt too wide) in paragraph at lines 8170--8170 [] \T1/pcr/m/n/9 dimnames=list(Opening= c("S", "M", "L"), Solder=c( "Thin", "Thick")))[] [3758] Underfull \hbox (badness 3780) in paragraph at lines 8207--8211 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther Overfull \hbox (24.78088pt too wide) in paragraph at lines 8236--8236 []\T1/pcr/m/n/10 statefig(layout, connect, margin = 0.03, box = TRUE, cex = 1, col = 1, [3759] [3760] [3761] [3762] [3763] Overfull \hbox (42.78088pt too wide) in paragraph at lines 8602--8602 []\T1/pcr/m/n/10 event = TRUE, pyears = TRUE, expected = TRUE, rate = FALSE, r r =expected,[] Overfull \hbox (36.78088pt too wide) in paragraph at lines 8603--8603 []\T1/pcr/m/n/10 ci.r = FALSE, ci.rr = FALSE, totals=FALSE, legend = TRUE, vli ne = FALSE,[] [3764] [3765] [3766] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8761--8761 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] Overfull \hbox (78.78088pt too wide) in paragraph at lines 8764--8764 [] \T1/pcr/m/n/10 extend=FALSE, rmean=getOption(\TS1/pcr/m/n/10 '\T1/pcr/m/n/ 10 survfit.rmean\TS1/pcr/m/n/10 '\T1/pcr/m/n/10 ), data.frame=FALSE, dosum, ... )[] [3767] [3768] [3769] [3770] [3771] Underfull \hbox (badness 1253) in paragraph at lines 9247--9250 []\T1/ptm/m/n/10 The []\T1/pcr/m/n/10 median[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 quantile []\T1/ptm/m/n/10 and []\T1/pcr/m/n/10 plot []\T1/ptm/m/n/10 meth-ods first con-struct a sur-vival curve us-ing [3772] [3773] Overfull \hbox (30.78088pt too wide) in paragraph at lines 9345--9345 []\T1/pcr/m/n/10 survcheck(formula, data, subset, na.action, id, istate, istat e0="(s0)", [3774] [3775] Overfull \hbox (12.78088pt too wide) in paragraph at lines 9483--9483 []\T1/pcr/m/n/10 survcondense(formula, data, subset, weights, na.action= na.pa ss, id, [3776] [3777] Overfull \hbox (9.78043pt too wide) in paragraph at lines 9683--9683 []\T1/pcr/m/n/9 check <- coxph(Surv(time, status) ~ factor(pat.karno) + strata (inst), lung)[] [3778] Overfull \hbox (36.7804pt too wide) in paragraph at lines 9689--9689 [] \T1/pcr/m/n/9 rmap= list(age=(accept.dt - birth.dt), sex=1 , year=accept.dt),[] Overfull \hbox (24.78088pt too wide) in paragraph at lines 9714--9714 [] \T1/pcr/m/n/10 method=c("ederer", "hakulinen", "conditional", "indiv idual.h",[] Underfull \hbox (badness 1038) in paragraph at lines 9756--9762 []\T1/ptm/m/n/10 op-tion does not cre-ate a curve, rather it re-trieves the pre -dicted sur-vival [3779] Overfull \hbox (48.78088pt too wide) in paragraph at lines 9808--9808 [] \T1/pcr/m/n/10 rmap = list(year=entry.dt, age=(birth.d t-entry.dt)),[] [3780] Overfull \hbox (4.38043pt too wide) in paragraph at lines 9894--9894 []\T1/pcr/m/n/9 summary(fit1, times=1:10*182.5, scale=365) #expected survival by 1/2 years[] [3781] [3782] [3783] Underfull \hbox (badness 10000) in paragraph at lines 10114--10119 [][][]\T1/pcr/m/n/10 survfit.formula[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/ 10 survfit.coxph[][][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 survfit.object[][ ][][]\T1/ptm/m/n/10 , [][][]\T1/pcr/m/n/10 print.survfit[][][][]\T1/ptm/m/n/10 , [3784] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10134--10134 [] \T1/pcr/m/n/10 se.fit=TRUE, conf.int=.95, individual=FALSE, stype=2, ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10135--10135 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] Overfull \hbox (18.78088pt too wide) in paragraph at lines 10140--10140 [] \T1/pcr/m/n/10 se.fit=FALSE, conf.int=.95, individual=FALSE, stype=2 , ctype,[] Overfull \hbox (30.78088pt too wide) in paragraph at lines 10141--10141 [] \T1/pcr/m/n/10 conf.type=c("log","log-log","plain","none", "logit", "arcsin"),[] [3785] [3786] [3787] Overfull \hbox (12.78088pt too wide) in paragraph at lines 10363--10363 [] \T1/pcr/m/n/10 stype=1, ctype=1, id, cluster, robust, istate, timefi x=TRUE,[] [3788] Underfull \hbox (badness 1924) in paragraph at lines 10452--10463 \T1/ptm/m/n/10 The log-log op-tion bases the in-ter-vals on the log haz-ard or log(- Underfull \hbox (badness 4441) in paragraph at lines 10504--10514 []\T1/ptm/m/n/10 by de-fault, the surv-fit rou-tines only re-turn in-for-ma-tio n at the [3789] Underfull \hbox (badness 2653) in paragraph at lines 10516--10521 \T1/pcr/m/n/10 ctype=1[]\T1/ptm/m/n/10 , "fleming-harrington" which is equiv-a- lent to []\T1/pcr/m/n/10 stype=2, [3790] [3791] Overfull \hbox (4.38043pt too wide) in paragraph at lines 10712--10712 []\T1/pcr/m/n/9 # There are no interval censored subjects, only left-censored (status=3),[] [3792] [3793] [3794] [3795] [3796] [3797] Overfull \hbox (30.78088pt too wide) in paragraph at lines 11144--11144 []\T1/pcr/m/n/10 survfitcoxph.fit(y, x, wt, x2, risk, newrisk, strata, se.fit, survtype, Underfull \hbox (badness 1354) in paragraph at lines 11185--11189 []\T1/ptm/m/n/10 survival times, for time de-pen-dent pre-dic-tion. It gives th e time range [3798] Overfull \hbox (120.78088pt too wide) in paragraph at lines 11229--11229 []\T1/pcr/m/n/10 survfit_confint(p, se, logse = TRUE, conf.type, conf.int = 0. 95, selow, ulimit = TRUE) [3799] Overfull \hbox (60.78088pt too wide) in paragraph at lines 11288--11288 []\T1/pcr/m/n/10 survConcordance(formula, data, weights, subset, na.action) # use concordance [3800] [3801] Underfull \hbox (badness 2035) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 it is as-sumed to name an el-e-ment from [][][]\T1/pcr/m/n/10 su rvreg.distributions[][][][]\T1/ptm/m/n/10 . Underfull \hbox (badness 10000) in paragraph at lines 11452--11459 \T1/ptm/m/n/10 These in-clude []\T1/pcr/m/n/10 "weibull"[]\T1/ptm/m/n/10 , []\T 1/pcr/m/n/10 "exponential"[]\T1/ptm/m/n/10 , []\T1/pcr/m/n/10 "gaussian"[]\T1/p tm/m/n/10 , Underfull \hbox (badness 1297) in paragraph at lines 11452--11459 []\T1/pcr/m/n/10 "logistic"[]\T1/ptm/m/n/10 ,[]\T1/pcr/m/n/10 "lognormal" []\T1 /ptm/m/n/10 and []\T1/pcr/m/n/10 "loglogistic"[]\T1/ptm/m/n/10 . Oth-er-wise, i t is [3802] Overfull \hbox (20.58041pt too wide) in paragraph at lines 11548--11548 []\T1/pcr/m/n/9 # There are multiple ways to parameterize a Weibull distributi on. The survreg[] [3803] [3804] [3805] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11705--11705 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3806] [3807] Overfull \hbox (4.38043pt too wide) in paragraph at lines 11837--11837 [] \T1/pcr/m/n/9 temp/pi, -2 *x*temp, 2*temp^2*(4*x ^2*temp -1))[] Overfull \hbox (31.3804pt too wide) in paragraph at lines 11840--11840 [] \T1/pcr/m/n/9 deviance= function(...) stop(\TS1/pcr/m/n/9 ' \T1/pcr/m/n/9 deviance residuals not defined\TS1/pcr/m/n/9 '\T1/pcr/m/n/9 )[] [3808] [3809] [3810] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12025--12025 []\T1/pcr/m/n/9 pfit2 <- pyears(Surv(years, death) ~ fgrp + agegrp, scale =100 0, data=test)[] [3811] [3812] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12183--12183 []\T1/pcr/m/n/9 # The first data set contains data on 312 subjects in a clinic al trial plus[] Overfull \hbox (9.78043pt too wide) in paragraph at lines 12184--12184 []\T1/pcr/m/n/9 # 106 that agreed to be followed off protocol, the second data set has data[] Overfull \hbox (4.38043pt too wide) in paragraph at lines 12190--12190 [] \T1/pcr/m/n/9 protime = tdc(day, protime), alk.phos = tdc(day , alk.phos))[] Overfull \hbox (15.18042pt too wide) in paragraph at lines 12192--12192 []\T1/pcr/m/n/9 fit <- coxph(Surv(tstart, tstop, endpt==2) ~ protime + log(bil i), data=pbc2)[] [3813] [3814] Underfull \hbox (badness 3780) in paragraph at lines 12305--12309 []\T1/ptm/m/n/10 or via an-other pack-age that de-pends on sur-vival, e.g., mst ate. If not, then ei-ther [3815] [3816] [3817] [3818] [3819] [3820] Overfull \hbox (12.78088pt too wide) in paragraph at lines 12677--12677 []\T1/pcr/m/n/10 levels, test = c("global", "trend", "pairwise"), predict = "l inear",[] [3821] [3822] [3823]) [3824] (./fullrefman.ind [3825] [3826] [3827] [3828] [3829] [3830] [3831] [3832] [3833] [3834] [3835] [3836] [3837] [3838] [3839] [3840] [3841] [3842] [3843] [3844] [3845] [3846] [3847] [3848] [3849] [3850] [3851] [3852] Overfull \hbox (19.3567pt too wide) in paragraph at lines 2899--2901 []| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2901--2903 []| \T1/pcr/m/n/10 smooth.construct.bs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2903--2905 []| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2905--2907 []| \T1/pcr/m/n/10 smooth.construct.ds.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2907--2909 []| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2909--2911 []| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 2911--2913 []| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2913--2915 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2915--2917 []| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2917--2919 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 2919--2921 []| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2921--2923 []| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2923--2925 []| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (43.3567pt too wide) in paragraph at lines 2925--2927 []| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 2927--2929 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3853] [3854] [3855] [3856] [3857] [3858] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3555--3557 []| \T1/pcr/m/n/10 smooth.construct.ad.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3557--3559 []| \T1/pcr/m/n/10 smooth.construct.bs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3559--3561 []| \T1/pcr/m/n/10 smooth.construct.cr.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3561--3563 []| \T1/pcr/m/n/10 smooth.construct.ds.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3563--3565 []| \T1/pcr/m/n/10 smooth.construct.fs.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3565--3567 []| \T1/pcr/m/n/10 smooth.construct.gp.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 3567--3569 []| \T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3569--3571 []| \T1/pcr/m/n/10 smooth.construct.ps.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3571--3573 []| \T1/pcr/m/n/10 smooth.construct.re.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3573--3575 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (25.3567pt too wide) in paragraph at lines 3575--3577 []| \T1/pcr/m/n/10 smooth.construct.sos.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3577--3579 []| \T1/pcr/m/n/10 smooth.construct.sz.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3579--3581 []| \T1/pcr/m/n/10 smooth.construct.t2.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (43.3567pt too wide) in paragraph at lines 3581--3583 []| \T1/pcr/m/n/10 smooth.construct.tensor.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (19.3567pt too wide) in paragraph at lines 3583--3585 []| \T1/pcr/m/n/10 smooth.construct.tp.smooth.spec\T1/ptm/m/n/10 , [3859] [3860] Overfull \hbox (19.3567pt too wide) in paragraph at lines 3742--3744 []| \T1/pcr/m/n/10 smooth.construct.so.smooth.spec\T1/ptm/m/n/10 , [3861] [3862] [3863] [3864] [3865] [3866] [3867] [3868] [3869] Overfull \hbox (20.8567pt too wide) in paragraph at lines 5004--5006 []\T1/pcr/m/n/10 [,Matrix,index,index,logical-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 5006--5008 []\T1/pcr/m/n/10 [,Matrix,index,index,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5008--5010 []\T1/pcr/m/n/10 [,Matrix,index,missing,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5010--5012 []\T1/pcr/m/n/10 [,Matrix,index,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5012--5014 []\T1/pcr/m/n/10 [,Matrix,lMatrix,missing,missing-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 5014--5016 []\T1/pcr/m/n/10 [,Matrix,matrix,missing,missing-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5016--5018 []\T1/pcr/m/n/10 [,Matrix,missing,index,logical-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 5018--5020 []\T1/pcr/m/n/10 [,Matrix,missing,index,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5020--5022 []\T1/pcr/m/n/10 [,Matrix,missing,missing,logical-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5022--5024 []\T1/pcr/m/n/10 [,Matrix,missing,missing,missing-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 5024--5026 []\T1/pcr/m/n/10 [,Matrix,nMatrix,missing,missing-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 5028--5030 []\T1/pcr/m/n/10 [,sparseVector,NULL,ANY,ANY-method Overfull \hbox (68.8567pt too wide) in paragraph at lines 5030--5032 []\T1/pcr/m/n/10 [,sparseVector,index,missing,missing-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5032--5034 []\T1/pcr/m/n/10 [,sparseVector,lsparseVector,missing,missing-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 5034--5036 []\T1/pcr/m/n/10 [,sparseVector,missing,missing,missing-method [3870] Overfull \hbox (116.8567pt too wide) in paragraph at lines 5036--5038 []\T1/pcr/m/n/10 [,sparseVector,nsparseVector,missing,missing-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5112--5114 []\T1/pcr/m/n/10 [<-,CsparseMatrix,Matrix,missing,replValue-method Overfull \hbox (86.8567pt too wide) in paragraph at lines 5114--5116 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,index,replValue-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5116--5118 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,index,sparseVector-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 5118--5120 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,missing,replValue-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5120--5122 []\T1/pcr/m/n/10 [<-,CsparseMatrix,index,missing,sparseVector-method Overfull \hbox (104.8567pt too wide) in paragraph at lines 5122--5124 []\T1/pcr/m/n/10 [<-,CsparseMatrix,matrix,missing,replValue-method Overfull \hbox (98.8567pt too wide) in paragraph at lines 5124--5126 []\T1/pcr/m/n/10 [<-,CsparseMatrix,missing,index,replValue-method Overfull \hbox (116.8567pt too wide) in paragraph at lines 5126--5128 []\T1/pcr/m/n/10 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lines 6318--6320 []\T1/pcr/m/n/10 Arith,dsCMatrix,dsCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6320--6322 []\T1/pcr/m/n/10 Arith,dsparseMatrix,logical-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6322--6324 []\T1/pcr/m/n/10 Arith,dsparseMatrix,nsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6324--6326 []\T1/pcr/m/n/10 Arith,dsparseMatrix,numeric-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6326--6328 []\T1/pcr/m/n/10 Arith,dsparseVector,dsparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6328--6330 []\T1/pcr/m/n/10 Arith,dtCMatrix,dtCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6334--6336 []\T1/pcr/m/n/10 Arith,lgCMatrix,lgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6336--6338 []\T1/pcr/m/n/10 Arith,lgeMatrix,lgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 6338--6340 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Arith,nsparseMatrix,dsparseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 6382--6384 []\T1/pcr/m/n/10 Arith,nsparseMatrix,lsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 6384--6386 []\T1/pcr/m/n/10 Arith,nsparseMatrix,Matrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6386--6388 []\T1/pcr/m/n/10 Arith,numeric,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 6388--6390 []\T1/pcr/m/n/10 Arith,numeric,ddenseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 6400--6402 []\T1/pcr/m/n/10 Arith,numeric,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 6410--6412 []\T1/pcr/m/n/10 Arith,sparseVector,ddenseMatrix-method [3880] Overfull \hbox (20.8567pt too wide) in paragraph at lines 6412--6414 []\T1/pcr/m/n/10 Arith,sparseVector,dgeMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 6414--6416 []\T1/pcr/m/n/10 Arith,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 6416--6418 []\T1/pcr/m/n/10 Arith,triangularMatrix,diagonalMatrix-method [3881] [3882] Overfull \hbox (32.8567pt too wide) in paragraph at lines 6908--6910 []\T1/pcr/m/n/10 aspell_write_personal_dictionary_file [3883] Overfull \hbox (46.01662pt too wide) in paragraph at lines 7105--7107 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , [3884] [3885] Overfull \hbox (10.01662pt too wide) in paragraph at lines 7552--7554 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3886] [3887] [3888] Overfull \hbox (2.8567pt too wide) in paragraph at lines 8038--8040 []\T1/pcr/m/n/10 chol2inv,triangularMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8081--8083 []\T1/pcr/m/n/10 Cholesky,triangularMatrix-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 8088--8090 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3889] [3890] [3891] Overfull \hbox (26.8567pt too wide) in paragraph at lines 8600--8602 []\T1/pcr/m/n/10 coerce,BunchKaufman,dtrMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8602--8604 []\T1/pcr/m/n/10 coerce,CHMsimpl,dtCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8604--8606 []\T1/pcr/m/n/10 coerce,CHMsuper,dgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8606--8608 []\T1/pcr/m/n/10 coerce,Cholesky,dtrMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8608--8610 []\T1/pcr/m/n/10 coerce,copMatrix,corMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8610--8612 []\T1/pcr/m/n/10 coerce,corMatrix,copMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8614--8616 []\T1/pcr/m/n/10 coerce,dgCMatrix,matrix.csc-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8616--8618 []\T1/pcr/m/n/10 coerce,dgRMatrix,matrix.csr-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8618--8620 []\T1/pcr/m/n/10 coerce,dgTMatrix,matrix.coo-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 8620--8622 []\T1/pcr/m/n/10 coerce,diagonalMatrix,symmetricMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 8622--8624 []\T1/pcr/m/n/10 coerce,diagonalMatrix,triangularMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8624--8626 []\T1/pcr/m/n/10 coerce,dpoMatrix,corMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8626--8628 []\T1/pcr/m/n/10 coerce,dpoMatrix,dppMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8628--8630 []\T1/pcr/m/n/10 coerce,dppMatrix,copMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8630--8632 []\T1/pcr/m/n/10 coerce,dppMatrix,dpoMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8632--8634 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coerce,graph,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8652--8654 []\T1/pcr/m/n/10 coerce,graph,TsparseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8654--8656 []\T1/pcr/m/n/10 coerce,graphAM,TsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8656--8658 []\T1/pcr/m/n/10 coerce,graphNEL,TsparseMatrix-method [3892] Overfull \hbox (14.8567pt too wide) in paragraph at lines 8672--8674 []\T1/pcr/m/n/10 coerce,Matrix,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8674--8676 []\T1/pcr/m/n/10 coerce,matrix,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8676--8678 []\T1/pcr/m/n/10 coerce,Matrix,ddenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8678--8680 []\T1/pcr/m/n/10 coerce,matrix,ddenseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8680--8682 []\T1/pcr/m/n/10 coerce,Matrix,denseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 8682--8684 []\T1/pcr/m/n/10 coerce,matrix,denseMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8686--8688 []\T1/pcr/m/n/10 coerce,Matrix,diagonalMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8688--8690 []\T1/pcr/m/n/10 coerce,matrix,diagonalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8702--8704 []\T1/pcr/m/n/10 coerce,Matrix,dsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8704--8706 []\T1/pcr/m/n/10 coerce,matrix,dsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8706--8708 []\T1/pcr/m/n/10 coerce,Matrix,generalMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8708--8710 []\T1/pcr/m/n/10 coerce,matrix,generalMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8718--8720 []\T1/pcr/m/n/10 coerce,Matrix,ldenseMatrix-method 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paragraph at lines 8754--8756 []\T1/pcr/m/n/10 coerce,matrix,packedMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8760--8762 []\T1/pcr/m/n/10 coerce,Matrix,RsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8762--8764 []\T1/pcr/m/n/10 coerce,matrix,RsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8764--8766 []\T1/pcr/m/n/10 coerce,Matrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8766--8768 []\T1/pcr/m/n/10 coerce,matrix,sparseMatrix-method [3893] Overfull \hbox (8.8567pt too wide) in paragraph at lines 8768--8770 []\T1/pcr/m/n/10 coerce,Matrix,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8770--8772 []\T1/pcr/m/n/10 coerce,matrix,sparseVector-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8772--8774 []\T1/pcr/m/n/10 coerce,Matrix,symmetricMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 8774--8776 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coerce,matrix.coo,dgCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8792--8794 []\T1/pcr/m/n/10 coerce,matrix.coo,dgTMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8796--8798 []\T1/pcr/m/n/10 coerce,matrix.coo,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8798--8800 []\T1/pcr/m/n/10 coerce,matrix.coo,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8800--8802 []\T1/pcr/m/n/10 coerce,matrix.coo,TsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8802--8804 []\T1/pcr/m/n/10 coerce,matrix.csc,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8804--8806 []\T1/pcr/m/n/10 coerce,matrix.csc,dgCMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8808--8810 []\T1/pcr/m/n/10 coerce,matrix.csc,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8810--8812 []\T1/pcr/m/n/10 coerce,matrix.csc,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8812--8814 []\T1/pcr/m/n/10 coerce,matrix.csc,TsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8814--8816 []\T1/pcr/m/n/10 coerce,matrix.csr,CsparseMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8816--8818 []\T1/pcr/m/n/10 coerce,matrix.csr,dgCMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 8818--8820 []\T1/pcr/m/n/10 coerce,matrix.csr,dgRMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8822--8824 []\T1/pcr/m/n/10 coerce,matrix.csr,RsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8824--8826 []\T1/pcr/m/n/10 coerce,matrix.csr,sparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8826--8828 []\T1/pcr/m/n/10 coerce,matrix.csr,TsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8828--8830 []\T1/pcr/m/n/10 coerce,nsparseMatrix,indMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 8830--8832 []\T1/pcr/m/n/10 coerce,nsparseMatrix,pMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 8842--8844 []\T1/pcr/m/n/10 coerce,pBunchKaufman,dtpMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 8844--8846 []\T1/pcr/m/n/10 coerce,pCholesky,dtpMatrix-method [3894] Overfull \hbox (50.8567pt too wide) in paragraph at lines 8850--8852 []\T1/pcr/m/n/10 coerce,sparseVector,CsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 8852--8854 []\T1/pcr/m/n/10 coerce,sparseVector,denseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8854--8856 []\T1/pcr/m/n/10 coerce,sparseVector,dsparseVector-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8856--8858 []\T1/pcr/m/n/10 coerce,sparseVector,generalMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 8858--8860 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determinant,denseLU,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10278--10280 []\T1/pcr/m/n/10 determinant,dgCMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10280--10282 []\T1/pcr/m/n/10 determinant,dgeMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10282--10284 []\T1/pcr/m/n/10 determinant,dgRMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10284--10286 []\T1/pcr/m/n/10 determinant,dgTMatrix,logical-method [3902] Overfull \hbox (56.8567pt too wide) in paragraph at lines 10286--10288 []\T1/pcr/m/n/10 determinant,diagonalMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10288--10290 []\T1/pcr/m/n/10 determinant,dpoMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10290--10292 []\T1/pcr/m/n/10 determinant,dppMatrix,logical-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10292--10294 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too wide) in paragraph at lines 10322--10324 []\T1/pcr/m/n/10 determinant,triangularMatrix,logical-method [3903] Overfull \hbox (10.01662pt too wide) in paragraph at lines 10624--10626 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3904] Overfull \hbox (20.8567pt too wide) in paragraph at lines 10689--10691 []\T1/pcr/m/n/10 dimnames,MatrixFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 10689--10691 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (26.8567pt too wide) in paragraph at lines 10697--10699 []\T1/pcr/m/n/10 dimnames<-,generalMatrix,list-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 10699--10701 []\T1/pcr/m/n/10 dimnames<-,generalMatrix,NULL-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 10705--10707 []\T1/pcr/m/n/10 dimnames<-,MatrixFactorization,list-method Overfull \hbox (10.01662pt too wide) in 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[]\T1/pcr/m/n/10 kronecker,indMatrix,indMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 14713--14715 []\T1/pcr/m/n/10 kronecker,indMatrix,Matrix-method [3924] Overfull \hbox (80.8567pt too wide) in paragraph at lines 14721--14723 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,diagonalMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 14723--14725 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,Matrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 14725--14727 []\T1/pcr/m/n/10 kronecker,RsparseMatrix,RsparseMatrix-method Overfull \hbox (80.8567pt too wide) in paragraph at lines 14727--14729 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,diagonalMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 14729--14731 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,Matrix-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 14731--14733 []\T1/pcr/m/n/10 kronecker,TsparseMatrix,TsparseMatrix-method [3925] Overfull \hbox (8.8567pt too wide) in paragraph at lines 14942--14944 []\T1/pcr/m/n/10 length,MatrixFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 14942--14944 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3926] [3927] Overfull \hbox (50.8567pt too wide) in paragraph at lines 15566--15568 []\T1/pcr/m/n/10 Logic,CsparseMatrix,CsparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15572--15574 []\T1/pcr/m/n/10 Logic,dMatrix,sparseVector-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 15574--15576 []\T1/pcr/m/n/10 Logic,ldenseMatrix,lsparseMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15576--15578 []\T1/pcr/m/n/10 Logic,lgCMatrix,lgCMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15578--15580 []\T1/pcr/m/n/10 Logic,lgeMatrix,lgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15580--15582 []\T1/pcr/m/n/10 Logic,lgTMatrix,lgTMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15586--15588 []\T1/pcr/m/n/10 Logic,lMatrix,sparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15594--15596 []\T1/pcr/m/n/10 Logic,lsCMatrix,lsCMatrix-method Overfull \hbox (44.8567pt too wide) in paragraph at lines 15596--15598 []\T1/pcr/m/n/10 Logic,lsparseMatrix,ldenseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 15598--15600 []\T1/pcr/m/n/10 Logic,lsparseMatrix,lsparseMatrix-method Overfull \hbox (50.8567pt too wide) in paragraph at lines 15600--15602 []\T1/pcr/m/n/10 Logic,lsparseVector,lsparseVector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 15602--15604 []\T1/pcr/m/n/10 Logic,ltCMatrix,ltCMatrix-method [3928] Overfull \hbox (2.8567pt too wide) in paragraph at lines 15608--15610 []\T1/pcr/m/n/10 Logic,ngeMatrix,ngeMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15618--15620 []\T1/pcr/m/n/10 Logic,nMatrix,sparseVector-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15626--15628 []\T1/pcr/m/n/10 Logic,sparseVector,dMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15628--15630 []\T1/pcr/m/n/10 Logic,sparseVector,lMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 15630--15632 []\T1/pcr/m/n/10 Logic,sparseVector,nMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 15632--15634 []\T1/pcr/m/n/10 Logic,sparseVector,sparseVector-method Overfull \hbox (74.8567pt too wide) in paragraph at lines 15634--15636 []\T1/pcr/m/n/10 Logic,triangularMatrix,diagonalMatrix-method [3929] Overfull \hbox (10.01662pt too wide) in paragraph at lines 15950--15952 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3930] [3931] [3932] [3933] Overfull \hbox (52.01662pt too wide) in paragraph at lines 16741--16743 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , [3934] [3935] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17357--17359 []\T1/pcr/m/n/10 nonstandardGenericWithTrace-class Overfull \hbox (8.8567pt too wide) in paragraph at lines 17378--17380 []\T1/pcr/m/n/10 norm,denseMatrix,character-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17380--17382 []\T1/pcr/m/n/10 norm,diagonalMatrix,character-method [3936] Overfull \hbox (14.8567pt too wide) in paragraph at lines 17386--17388 []\T1/pcr/m/n/10 norm,sparseMatrix,character-method [3937] Overfull \hbox (8.8567pt too wide) in paragraph at lines 17690--17692 []\T1/pcr/m/n/10 Ops,ddiMatrix,sparseMatrix-method Overfull \hbox (62.8567pt too wide) in paragraph at lines 17692--17694 []\T1/pcr/m/n/10 Ops,diagonalMatrix,triangularMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17712--17714 []\T1/pcr/m/n/10 Ops,dsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17714--17716 []\T1/pcr/m/n/10 Ops,ldenseMatrix,ldenseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17732--17734 []\T1/pcr/m/n/10 Ops,ldiMatrix,sparseMatrix-method [3938] Overfull \hbox (38.8567pt too wide) in paragraph at lines 17746--17748 []\T1/pcr/m/n/10 Ops,lsparseMatrix,lsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17748--17750 []\T1/pcr/m/n/10 Ops,lsparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17766--17768 []\T1/pcr/m/n/10 Ops,ndenseMatrix,ndenseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17782--17784 []\T1/pcr/m/n/10 Ops,nonStructure,nonStructure-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17786--17788 []\T1/pcr/m/n/10 Ops,nsparseMatrix,dsparseMatrix-method Overfull \hbox (38.8567pt too wide) in paragraph at lines 17788--17790 []\T1/pcr/m/n/10 Ops,nsparseMatrix,lsparseMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17790--17792 []\T1/pcr/m/n/10 Ops,nsparseMatrix,sparseMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17804--17806 []\T1/pcr/m/n/10 Ops,sparseMatrix,ddiMatrix-method Overfull \hbox (8.8567pt too wide) in paragraph at lines 17806--17808 []\T1/pcr/m/n/10 Ops,sparseMatrix,ldiMatrix-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 17808--17810 []\T1/pcr/m/n/10 Ops,sparseMatrix,nsparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17812--17814 []\T1/pcr/m/n/10 Ops,sparseMatrix,sparseMatrix-method Overfull \hbox (26.8567pt too wide) in paragraph at lines 17820--17822 []\T1/pcr/m/n/10 Ops,sparseVector,sparseVector-method [3939] Overfull \hbox (46.01662pt too wide) in paragraph at lines 18036--18038 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ps.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (77.3567pt too wide) in paragraph at lines 18071--18073 []\T1/pcr/m/n/10 package_native_routine_registration_skeleton\T1/ptm/m/n/10 , [3940] [3941] [3942] [3943] [3944] [3945] Overfull \hbox (46.01662pt too wide) in paragraph at lines 19438--19440 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19441--19443 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19443--19445 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19445--19447 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ds.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19447--19449 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.fs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19449--19451 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.gp.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (52.01662pt too wide) in paragraph at lines 19451--19453 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19453--19455 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19455--19457 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.re.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19457--19459 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.soap.film\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19459--19461 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.soap.film\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3946] Overfull \hbox (52.01662pt too wide) in paragraph at lines 19463--19465 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.sos.smooth.spec\T1/ptm/m/it/1 0 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 19465--19467 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.sz.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19467--19469 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19469--19471 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19471--19473 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , Overfull \hbox (4.01662pt too wide) in paragraph at lines 19473--19475 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 Predict.matrix.cr.smooth\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3947] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19826--19828 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3948] Overfull \hbox (4.01662pt too wide) in paragraph at lines 19904--19906 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 getDLLRegisteredRoutines\T1/ptm/m/it/10 )\T1/p tm/m/n/10 , [3949] [3950] [3951] Overfull \hbox (10.01662pt too wide) in paragraph at lines 20370--20372 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 20376--20378 []\T1/pcr/m/n/10 qr.coef,sparseQR,dgeMatrix-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20386--20388 []\T1/pcr/m/n/10 qr.fitted,sparseQR,dgeMatrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20388--20390 []\T1/pcr/m/n/10 qr.fitted,sparseQR,Matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20390--20392 []\T1/pcr/m/n/10 qr.fitted,sparseQR,matrix-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20392--20394 []\T1/pcr/m/n/10 qr.fitted,sparseQR,vector-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20404--20406 []\T1/pcr/m/n/10 qr.qty,sparseQR,dgeMatrix-method Overfull \hbox (14.8567pt too wide) in paragraph at lines 20429--20431 []\T1/pcr/m/n/10 qr.resid,sparseQR,dgeMatrix-method [3952] Overfull \hbox (62.8567pt too wide) in paragraph at lines 20566--20568 []\T1/pcr/m/n/10 R_AVAILABLE_PACKAGES_CACHE_CONTROL_MAX_AGE [3953] Overfull \hbox (14.8567pt too wide) in paragraph at lines 20852--20854 []\T1/pcr/m/n/10 rcond,denseMatrix,character-method Overfull \hbox (32.8567pt too wide) in paragraph at lines 20854--20856 []\T1/pcr/m/n/10 rcond,diagonalMatrix,character-method Overfull \hbox (2.8567pt too wide) in paragraph at lines 20856--20858 []\T1/pcr/m/n/10 rcond,indMatrix,character-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 20860--20862 []\T1/pcr/m/n/10 rcond,sparseMatrix,character-method [3954] [3955] [3956] [3957] [3958] Overfull \hbox (10.01662pt too wide) in paragraph at lines 21901--21903 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3959] [3960] Overfull \hbox (32.8567pt too wide) in paragraph at lines 22269--22271 []\T1/pcr/m/n/10 show,BunchKaufmanFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22269--22271 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 22271--22273 []\T1/pcr/m/n/10 show,CholeskyFactorization-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22271--22273 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (26.8567pt too wide) in paragraph at lines 22285--22287 []\T1/pcr/m/n/10 show,genericFunctionWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22287--22289 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (10.01662pt too wide) in paragraph at lines 22289--22291 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (32.8567pt too wide) in paragraph at lines 22293--22295 []\T1/pcr/m/n/10 show,MethodDefinitionWithTrace-method Overfull \hbox (20.8567pt too wide) in paragraph at lines 22297--22299 []\T1/pcr/m/n/10 show,MethodWithNextWithTrace-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22303--22305 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , Overfull \hbox (14.8567pt too wide) in paragraph at lines 22305--22307 []\T1/pcr/m/n/10 show,refClassRepresentation-method Overfull \hbox (10.01662pt too wide) in paragraph at lines 22311--22313 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 MatrixFactorization-class\T1/ptm/m/it/10 )\T1/ ptm/m/n/10 , [3961] [3962] Overfull \hbox (46.01662pt too wide) in paragraph at lines 22553--22555 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.cr.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22555--22557 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.ps.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22558--22560 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.cr.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (5.3567pt too wide) in paragraph at lines 22566--22567 []\T1/pcr/m/n/10 smooth.construct.mrf.smooth.spec\T1/ptm/m/n/10 , Overfull \hbox (46.01662pt too wide) in paragraph at lines 22578--22580 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 smooth.construct.bs.smooth.spec\T1/ptm/m/it/10 )\T1/ptm/m/n/10 , Overfull \hbox (8.8567pt too wide) in paragraph at lines 22580--22582 []\T1/pcr/m/n/10 smooth.construct.scad.smooth.spec Overfull \hbox (46.01662pt too wide) in paragraph at lines 22580--22582 \T1/ptm/m/it/10 (\T1/pcr/m/sl/10 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replaced by a fixed one pdfTeX warning (dest): name{Rfn.asNamespace} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.formalArgs} has been referenced but does not ex ist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.base.Rdash.deprecated} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.base.Rdash.defunct} has been referenced but doe s not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.isRematched} has been referenced but does not e xist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one < /usr/share/texlive/texmf-dist/fonts/type1/public/amsfonts/cm/cmbx10.pfb>< /usr/share/texlive/texmf-dist/fonts/type1/urw/times/utmb8a.pfb> Output written on fullrefman.pdf (4037 pages, 11352548 bytes). Transcript written on fullrefman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-FAQ.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-FAQ.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [-1] Chapter 1 Chapter 2 [1] Cross reference values unknown; you must run TeX again. [2] Underfull \hbox (badness 10000) in paragraph at lines 256--285 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 613--618 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1479--1482 []@textrm See [][]@texttt https:// en. wikipedia. org/ wiki/ R_programming _language# Underfull \hbox (badness 10000) in paragraph at lines 1479--1482 @texttt Commercialized_versions_of_R[][] @textrm for point-ers to com-mer-cial- ized ver-sions of Chapter 4 [18] Chapter 5 [19] [20] [21] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1754--1754 []@smalltt KernSmooth Functions for Kernel Smoothing Supporting Wand & Jone s (1995)[] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1755--1755 []@smalltt MASS Support Functions and Datasets for Venables and Riple y s MASS[] [22] [23] Chapter 6 [24] [25] Chapter 7 [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] Writing index file R-FAQ.fn [38] Underfull \hbox (badness 10000) in paragraph at lines 3037--3051 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] (Acknowledgments) [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (49 pages, 351659 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-FAQ.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-FAQ.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-FAQ.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-FAQ.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-FAQ.aux) Chapter 2 [1] [2] Underfull \hbox (badness 10000) in paragraph at lines 256--285 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 613--618 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [7] [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] Underfull \hbox (badness 10000) in paragraph at lines 1479--1482 []@textrm See [][]@texttt https:// en. wikipedia. org/ wiki/ R_programming _language# Underfull \hbox (badness 10000) in paragraph at lines 1479--1482 @texttt Commercialized_versions_of_R[][] @textrm for point-ers to com-mer-cial- ized ver-sions of Chapter 4 [18] Chapter 5 [19] [20] [21] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1754--1754 []@smalltt KernSmooth Functions for Kernel Smoothing Supporting Wand & Jone s (1995)[] Overfull \hbox (14.27353pt too wide) in paragraph at lines 1755--1755 []@smalltt MASS Support Functions and Datasets for Venables and Riple y s MASS[] [22] [23] Chapter 6 [24] [25] Chapter 7 [26] [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] Writing index file R-FAQ.fn [38] Underfull \hbox (badness 10000) in paragraph at lines 3037--3051 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [39] [40] [41] Chapter 8 [42] Chapter 9 [43] [44] [45] (Acknowledgments) [46] [47] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (51 pages, 368847 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-admin.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-admin.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-admin.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] [17] Chapter 4 [18] [19] [20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25] Overfull \hbox (16.31242pt too wide) in paragraph at lines 2164--2164 []@texttt FLIBS = -L/Library/Frameworks/R.framework/Resources/lib -lgfortran - lquadmath[] [26] [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35] [36] [37] Appendix A [38] [39] Overfull \hbox (27.8098pt too wide) in paragraph at lines 3197--3197 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3420--3422 []@textrm Library @texttt libdeflate[] @textrm ([][]@texttt https:// github. com/ ebiggers/ libdeflate[][]@textrm ) is used by [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \hbox (badness 10000) in paragraph at lines 4157--4160 []@textrm There is also `Re-cur-sive-LA-PACK' ([][]@texttt https:// github. c om/ HPAC/ ReLAPACK? Appendix B [51] [52] [53] [54] [55] [56] Appendix C [57] [58] [59] [60] [61] [62] Overfull \hbox (101.2292pt too wide) in paragraph at lines 5167--5167 []@texttt curl -OL https://mac.r-project.org/bin/darwin23/arm64/pcre2-10.47-da rwin.23-arm64.tar.xz[] Overfull \hbox (83.98314pt too wide) in paragraph at lines 5169--5169 []@texttt curl -OL https://mac.r-project.org/bin/darwin23/arm64/xz-5.8.3-darwi n.23-arm64.tar.xz[] [63] [64] Overfull \hbox (39.30717pt too wide) in paragraph at lines 5305--5305 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.3-darwin.20 -arm64.tar.gz[] Overfull \hbox (17.16873pt too wide) in paragraph at lines 5351--5352 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][]@smallrm .| [65] [66] Overfull \hbox (51.1502pt too wide) in paragraph at lines 5630--5630 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][]| [67] [68] [69] [70] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5901--5901 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0/libgfortran.5. dylib \[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5906--5906 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0/libquadmath.0. dylib \[] Overfull \hbox (50.80455pt too wide) in paragraph at lines 5947--5947 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [71] [72] (Function and variable index) [73] No file R-admin.vrs. (Environment variable index) [74] No file R-admin.ens. (Concept index) [75] No file R-admin.cps. [76] ) (see the transcript file for additional information) pdfTeX warning (dest): name{\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not exist, replaced by a fixed one Output written on R-admin.pdf (79 pages, 471470 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-admin.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-admin.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] Chapter 3 [15] [16] [17] Chapter 4 [18] [19] [20] Chapter 5 [21] Chapter 6 [22] [23] [24] [25] Overfull \hbox (16.31242pt too wide) in paragraph at lines 2164--2164 []@texttt FLIBS = -L/Library/Frameworks/R.framework/Resources/lib -lgfortran - lquadmath[] [26] [27] [28] [29] [30] Chapter 7 [31] [32] [33] Chapter 8 [34] Chapter 9 [35] [36] [37] Appendix A [38] [39] Overfull \hbox (27.8098pt too wide) in paragraph at lines 3197--3197 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3420--3422 []@textrm Library @texttt libdeflate[] @textrm ([][]@texttt https:// github. com/ ebiggers/ libdeflate[][]@textrm ) is used by [42] [43] [44] [45] [46] [47] [48] [49] [50] Underfull \hbox (badness 10000) in paragraph at lines 4157--4160 []@textrm There is also `Re-cur-sive-LA-PACK' ([][]@texttt https:// github. c om/ HPAC/ ReLAPACK? Appendix B [51] [52] [53] [54] [55] [56] Appendix C [57] [58] [59] [60] [61] [62] Overfull \hbox (101.2292pt too wide) in paragraph at lines 5167--5167 []@texttt curl -OL https://mac.r-project.org/bin/darwin23/arm64/pcre2-10.47-da rwin.23-arm64.tar.xz[] Overfull \hbox (83.98314pt too wide) in paragraph at lines 5169--5169 []@texttt curl -OL https://mac.r-project.org/bin/darwin23/arm64/xz-5.8.3-darwi n.23-arm64.tar.xz[] [63] l.5230: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5230: Undefined cross reference ` Tcl/Tk headers and libraries-snt'. l.5230: Undefined cross reference ` Tcl/Tk headers and libraries-pg'. [64] Overfull \hbox (39.30717pt too wide) in paragraph at lines 5305--5305 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.3-darwin.20 -arm64.tar.gz[] Overfull \hbox (17.16873pt too wide) in paragraph at lines 5351--5352 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][]@smallrm .| [65] [66] Overfull \hbox (51.1502pt too wide) in paragraph at lines 5630--5630 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][]| [67] [68] [69] [70] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5901--5901 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0/libgfortran.5. dylib \[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5906--5906 []@texttt /opt/gfortran/lib/gcc/aarch64-apple-darwin20.0/14.2.0/libquadmath.0. dylib \[] Overfull \hbox (50.80455pt too wide) in paragraph at lines 5947--5947 []@texttt FC="/opt//gfortran/bin/gfortran -arch x86_64 -mtune=native -mmacosx- version-min=11"[] [71] [72] (Function and variable index) [73] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.vrs) (Environment variable index) [74] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.ens) (Concept index) [75] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-admin.cps) [76] ) (see the transcript file for additional information) pdfTeX warning (dest): name{\040Tcl/Tk\040headers\040and\040libraries} has been referenced but does not exist, replaced by a fixed one Output written on R-admin.pdf (81 pages, 514696 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-data.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 436--440 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] Underfull \hbox (badness 10000) in paragraph at lines 1215--1221 @texttt microsoft. com/ en-us/ sql/ odbc/ microsoft-open-database-connecti vity-odbc[][]@textrm ) but is [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] (References) [27] (Function and variable index) [28] No file R-data.vrs. (Concept index) [29] No file R-data.cps. [30] ) (see the transcript file for additional information) Output written on R-data.pdf (33 pages, 263686 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc [-1]) [-2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (Acknowledgements) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.aux) Chapter 1 [1] Writing index file R-data.cp [2] [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 436--440 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] Underfull \hbox (badness 10000) in paragraph at lines 1215--1221 @texttt microsoft. com/ en-us/ sql/ odbc/ microsoft-open-database-connecti vity-odbc[][]@textrm ) but is [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] (References) [27] (Function and variable index) [28] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.vrs [29]) (Concept index) [30] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.cps) [31] ) (see the transcript file for additional information) Output written on R-data.pdf (35 pages, 299766 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-data.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-data.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc [-1]) [-2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.toc) (Acknowledgements) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.aux) Chapter 1 [1] Writing index file R-data.cp [2] [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 436--440 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ Chapter 2 [5] [6] [7] [8] [9] [10] Chapter 3 [11] [12] Chapter 4 [13] Underfull \hbox (badness 10000) in paragraph at lines 1215--1221 @texttt microsoft. com/ en-us/ sql/ odbc/ microsoft-open-database-connecti vity-odbc[][]@textrm ) but is [14] [15] [16] [17] [18] Chapter 5 [19] Chapter 6 [20] Chapter 7 [21] [22] [23] [24] Chapter 8 [25] Chapter 9 [26] (References) [27] (Function and variable index) [28] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.vrs [29]) (Concept index) [30] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-data.cps) [31] ) (see the transcript file for additional information) Output written on R-data.pdf (35 pages, 299767 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-exts.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 513--516 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] Underfull \hbox (badness 10000) in paragraph at lines 1327--1328 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1328--1329 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1341--1342 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1342--1343 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] [18] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1613--1613 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1614--1614 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] Underfull \hbox (badness 10000) in paragraph at lines 1714--1724 [][]@texttt https:// sourceforge. net/ projects/ tktable/ files/ tktable/ 2. 10/ Tktable2. 10. tar. gz/ [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2689--2689 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (31.98314pt too wide) in paragraph at lines 2691--2691 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 3036--3039 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [35] Overfull \hbox (39.30717pt too wide) in paragraph at lines 3100--3100 [] @texttt CXX="$(CXX20) $(CXX20STD)" CXXFLAGS="$(CXX20FLAGS) $(CXX 20PICFLAGS)")[] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 3254--3258 @textrm ([][]@texttt https:// cmake. org/ cmake/ help/ latest/ manual/ c make-env-variables. 7. html# [38] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3355--3355 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4964--4964 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] [57] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4983--4983 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [58] [59] [60] [61] [62] Overfull \hbox (60.98839pt too wide) in paragraph at lines 5446--5446 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 2 3 24 25 26 27[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5462--5462 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5464--5464 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5465--5465 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5480--5480 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [63] Underfull \hbox (badness 7558) in paragraph at lines 5548--5552 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [64] [65] [66] [67] [68] [69] Underfull \hbox (badness 10000) in paragraph at lines 6057--6060 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [70] [71] [72] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6289--6289 []@texttt register storage class specifier is deprecated and incompatible with C++17[] [73] Overfull \hbox (26.49626pt too wide) in paragraph at lines 6431--6431 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [74] Overfull \hbox (89.73183pt too wide) in paragraph at lines 6458--6458 [] @texttt Rf_error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj) , (double) nelem);[] Writing index file R-exts.ap Underfull \hbox (badness 10000) in paragraph at lines 6511--6512 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] [78] [79] Writing index file R-exts.ae [80] [81] [82] Underfull \hbox (badness 10000) in paragraph at lines 7211--7221 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[]) and RForge Chapter 2 [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] Underfull \hbox (badness 10000) in paragraph at lines 8274--8281 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 8457--8463 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of Underfull \hbox (badness 10000) in paragraph at lines 8490--8495 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [98] [99] [100] [101] Chapter 3 [102] [103] [104] [105] [106] [107] Overfull \hbox (22.06111pt too wide) in paragraph at lines 9344--9344 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [108] Chapter 4 [109] [110] [111] [112] [113] Underfull \hbox (badness 10000) in paragraph at lines 9790--9799 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [114] [115] [116] Underfull \hbox (badness 10000) in paragraph at lines 10049--10062 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][]@textrm , Overfull \hbox (27.28387pt too wide) in paragraph at lines 10066--10067 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [117] [118] Overfull \hbox (56.55324pt too wide) in paragraph at lines 10217--10217 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 @texttt -fsanitize=undefined,address[] @textrm (where both are sup-ported, and we have seen [119] Overfull \hbox (91.04536pt too wide) in paragraph at lines 10371--10371 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (148.53224pt too wide) in paragraph at lines 10372--10372 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (160.02962pt too wide) in paragraph at lines 10375--10375 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (16.31242pt too wide) in paragraph at lines 10383--10383 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] [120] Overfull \hbox (50.80455pt too wide) in paragraph at lines 10445--10445 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] [121] [122] [123] [124] Underfull \hbox (badness 10000) in paragraph at lines 10807--10809 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : [125] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10863--10863 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10882--10882 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10893--10893 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] [126] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10923--10923 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11789--11789 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [137] [138] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11955--11955 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [139] [140] [141] [142] [143] Overfull \hbox (16.31242pt too wide) in paragraph at lines 12395--12395 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 10000) in paragraph at lines 13649--13664 @texttt R_existsVarInFrame[]@textrm , @texttt R_removeVarFromFrame[]@textrm , @ texttt R_PackageEnvName[]@textrm , @texttt R_IsPackageEnv[]@textrm , [156] [157] [158] [159] Overfull \hbox (27.8098pt too wide) in paragraph at lines 14003--14003 [] @texttt Rf_isNull(TAG(args)) ? "" : Rf_translateChar(PRINTNAME(T AG(args)));[] [160] [161] [162] [163] [164] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14448--14448 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [165] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14516--14516 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [166] [167] [168] [169] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14890--14890 [] @texttt ptr = R_MakeExternalPtr(thisHandle, Rf_install("RODBC_channel"), R_NilValue);[] [170] [171] Overfull \hbox (50.80455pt too wide) in paragraph at lines 15027--15027 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [172] [173] Chapter 6 [174] [175] [176] [177] Writing index file R-exts.for [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] Overfull \hbox (45.05586pt too wide) in paragraph at lines 17169--17169 [] @texttt SEXP (*hndlr)(SEXP cond, void *hdata) , void *hdata)[] [195] [196] [197] [198] [199] [200] Underfull \hbox (badness 10000) in paragraph at lines 17644--17658 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ [201] [202] [203] [204] [205] [206] [207] Chapter 7 [208] [209] Chapter 8 [210] [211] Writing index file R-exts.em [212] Overfull \hbox (22.06111pt too wide) in paragraph at lines 18618--18618 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was built with a s tatic libR[] [213] Overfull \hbox (33.55849pt too wide) in paragraph at lines 18676--18676 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 19217--19224 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [220] [221] (Function and variable index) [222] No file R-exts.vrs. (API index) [223] No file R-exts.aps. (Fortran API index) [224] No file R-exts.fors. (Experimental API index) [225] No file R-exts.aes. (Embedding API index) [226] No file R-exts.ems. (Concept index) [227] No file R-exts.cps. [228] ) (see the transcript file for additional information) Output written on R-exts.pdf (231 pages, 1040737 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (Acknowledgements) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 513--516 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] Underfull \hbox (badness 10000) in paragraph at lines 1327--1328 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1328--1329 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1341--1342 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1342--1343 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] [18] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1613--1613 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1614--1614 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] Underfull \hbox (badness 10000) in paragraph at lines 1714--1724 [][]@texttt https:// sourceforge. net/ projects/ tktable/ files/ tktable/ 2. 10/ Tktable2. 10. tar. gz/ [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2689--2689 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (31.98314pt too wide) in paragraph at lines 2691--2691 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 3036--3039 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [35] Overfull \hbox (39.30717pt too wide) in paragraph at lines 3100--3100 [] @texttt CXX="$(CXX20) $(CXX20STD)" CXXFLAGS="$(CXX20FLAGS) $(CXX 20PICFLAGS)")[] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 3254--3258 @textrm ([][]@texttt https:// cmake. org/ cmake/ help/ latest/ manual/ c make-env-variables. 7. html# [38] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3355--3355 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4964--4964 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4983--4983 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [57] [58] [59] [60] [61] [62] Overfull \hbox (60.98839pt too wide) in paragraph at lines 5446--5446 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 2 3 24 25 26 27[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5462--5462 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5464--5464 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5465--5465 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5480--5480 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [63] Underfull \hbox (badness 7558) in paragraph at lines 5548--5552 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [64] [65] [66] [67] [68] [69] Underfull \hbox (badness 10000) in paragraph at lines 6057--6060 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [70] [71] [72] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6289--6289 []@texttt register storage class specifier is deprecated and incompatible with C++17[] [73] Overfull \hbox (26.49626pt too wide) in paragraph at lines 6431--6431 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [74] Overfull \hbox (89.73183pt too wide) in paragraph at lines 6458--6458 [] @texttt Rf_error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj) , (double) nelem);[] Writing index file R-exts.ap Underfull \hbox (badness 10000) in paragraph at lines 6511--6512 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] [78] [79] Writing index file R-exts.ae [80] [81] [82] Underfull \hbox (badness 10000) in paragraph at lines 7211--7221 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[]) and RForge Chapter 2 [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] Underfull \hbox (badness 10000) in paragraph at lines 8274--8281 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 8457--8463 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of Underfull \hbox (badness 10000) in paragraph at lines 8490--8495 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [98] [99] [100] [101] Chapter 3 [102] [103] [104] [105] [106] [107] Overfull \hbox (22.06111pt too wide) in paragraph at lines 9344--9344 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [108] Chapter 4 [109] [110] [111] [112] [113] Underfull \hbox (badness 10000) in paragraph at lines 9790--9799 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [114] [115] [116] Underfull \hbox (badness 10000) in paragraph at lines 10049--10062 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][]@textrm , Overfull \hbox (27.28387pt too wide) in paragraph at lines 10066--10067 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [117] [118] Overfull \hbox (56.55324pt too wide) in paragraph at lines 10217--10217 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 @texttt -fsanitize=undefined,address[] @textrm (where both are sup-ported, and we have seen [119] Overfull \hbox (91.04536pt too wide) in paragraph at lines 10371--10371 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (148.53224pt too wide) in paragraph at lines 10372--10372 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (160.02962pt too wide) in paragraph at lines 10375--10375 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (16.31242pt too wide) in paragraph at lines 10383--10383 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] [120] Overfull \hbox (50.80455pt too wide) in paragraph at lines 10445--10445 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] [121] [122] [123] [124] Underfull \hbox (badness 10000) in paragraph at lines 10807--10809 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : [125] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10863--10863 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10882--10882 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10893--10893 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] [126] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10923--10923 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11789--11789 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [137] [138] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11955--11955 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [139] [140] [141] [142] [143] Overfull \hbox (16.31242pt too wide) in paragraph at lines 12395--12395 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 10000) in paragraph at lines 13649--13664 @texttt R_existsVarInFrame[]@textrm , @texttt R_removeVarFromFrame[]@textrm , @ texttt R_PackageEnvName[]@textrm , @texttt R_IsPackageEnv[]@textrm , [156] [157] [158] [159] Overfull \hbox (27.8098pt too wide) in paragraph at lines 14003--14003 [] @texttt Rf_isNull(TAG(args)) ? "" : Rf_translateChar(PRINTNAME(T AG(args)));[] [160] [161] [162] [163] [164] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14448--14448 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [165] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14516--14516 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [166] [167] [168] [169] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14890--14890 [] @texttt ptr = R_MakeExternalPtr(thisHandle, Rf_install("RODBC_channel"), R_NilValue);[] [170] [171] Overfull \hbox (50.80455pt too wide) in paragraph at lines 15027--15027 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [172] [173] Chapter 6 [174] [175] [176] [177] Writing index file R-exts.for [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] Overfull \hbox (45.05586pt too wide) in paragraph at lines 17169--17169 [] @texttt SEXP (*hndlr)(SEXP cond, void *hdata) , void *hdata)[] [196] [197] [198] [199] [200] Underfull \hbox (badness 10000) in paragraph at lines 17644--17658 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ [201] [202] [203] [204] [205] [206] [207] Chapter 7 [208] [209] Chapter 8 [210] [211] Writing index file R-exts.em [212] Overfull \hbox (22.06111pt too wide) in paragraph at lines 18618--18618 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was built with a s tatic libR[] [213] Overfull \hbox (33.55849pt too wide) in paragraph at lines 18676--18676 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 19217--19224 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [220] [221] (Function and variable index) [222] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.vrs [223] [224] [225] [226] [227] [228]) (API index) [229] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aps [230] [231] [232]) (Fortran API index) [233] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.fors ) (Experimental API index) [234] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aes [235]) (Embedding API index) [236] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.ems) (Concept index) [237] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.cps [238]) [239] ) (see the transcript file for additional information) Output written on R-exts.pdf (246 pages, 1152977 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-exts.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-exts.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.toc) (Acknowledgements) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 513--516 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] Underfull \hbox (badness 10000) in paragraph at lines 1327--1328 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1328--1329 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1333--1335 @texttt ~/.R/Makevars.win64[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1341--1342 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1342--1343 @texttt R_MAKEVARS_SITE[]@textrm , @textttsl R_HOME@texttt /etc/@textttsl R_ Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt R_MAKEVARS_USER[]@textrm , @texttt ~/.R/Makevars.ucrt[]@textrm , Underfull \hbox (badness 10000) in paragraph at lines 1347--1349 @texttt ~/.R/Makevars.win64[]@textrm , [15] [16] [17] [18] Overfull \hbox (73.7993pt too wide) in paragraph at lines 1613--1613 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (50.80455pt too wide) in paragraph at lines 1614--1614 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] [19] Underfull \hbox (badness 10000) in paragraph at lines 1714--1724 [][]@texttt https:// sourceforge. net/ projects/ tktable/ files/ tktable/ 2. 10/ Tktable2. 10. tar. gz/ [20] [21] [22] [23] [24] [25] [26] [27] [28] [29] [30] Overfull \hbox (46.15797pt too wide) in paragraph at lines 2689--2689 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (31.98314pt too wide) in paragraph at lines 2691--2691 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [31] [32] [33] [34] Underfull \hbox (badness 10000) in paragraph at lines 3036--3039 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][] @smallrm or [35] Overfull \hbox (39.30717pt too wide) in paragraph at lines 3100--3100 [] @texttt CXX="$(CXX20) $(CXX20STD)" CXXFLAGS="$(CXX20FLAGS) $(CXX 20PICFLAGS)")[] [36] [37] Underfull \hbox (badness 10000) in paragraph at lines 3254--3258 @textrm ([][]@texttt https:// cmake. org/ cmake/ help/ latest/ manual/ c make-env-variables. 7. html# [38] Overfull \hbox (22.06111pt too wide) in paragraph at lines 3355--3355 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] Overfull \hbox (59.67485pt too wide) in paragraph at lines 4964--4964 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (37.99364pt too wide) in paragraph at lines 4983--4983 []@texttt CXXFLAGS = ^^R"${RBIN}" CMD config CXXFLAGS^^R ^^R"${RBIN}" CMD conf ig CXXPICFLAGS^^R[] [57] [58] [59] [60] [61] [62] Overfull \hbox (60.98839pt too wide) in paragraph at lines 5446--5446 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 2 3 24 25 26 27[] Overfull \hbox (32.24495pt too wide) in paragraph at lines 5462--5462 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (26.49626pt too wide) in paragraph at lines 5464--5464 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (43.74232pt too wide) in paragraph at lines 5465--5465 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (55.2397pt too wide) in paragraph at lines 5480--5480 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [63] Underfull \hbox (badness 7558) in paragraph at lines 5548--5552 @texttt /Applications/CMake.app/Contents/bin/cmake[] @textrm and that should b e looked for [64] [65] [66] [67] [68] [69] Underfull \hbox (badness 10000) in paragraph at lines 6057--6060 @texttt gcc/ C-Extensions. html[][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [70] [71] [72] Overfull \hbox (32.24495pt too wide) in paragraph at lines 6289--6289 []@texttt register storage class specifier is deprecated and incompatible with C++17[] [73] Overfull \hbox (26.49626pt too wide) in paragraph at lines 6431--6431 []@texttt !DEC$ ATTRIBUTES DLLEXPORT,C,REFERENCE,ALIAS: kdenestmlcvb :: kdenestmlcvb[] [74] Overfull \hbox (89.73183pt too wide) in paragraph at lines 6458--6458 [] @texttt Rf_error("Actual: %0.f; Expected %0.f\n", (double) XLENGTH(Robj) , (double) nelem);[] Writing index file R-exts.ap Underfull \hbox (badness 10000) in paragraph at lines 6511--6512 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] [78] [79] Writing index file R-exts.ae [80] [81] [82] Underfull \hbox (badness 10000) in paragraph at lines 7211--7221 []@textrm R-Forge ([][]R-Forge.r-project.org (@texttt https:// R-Forge. r-pro ject. org[]@textrm )[]) and RForge Chapter 2 [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] Underfull \hbox (badness 10000) in paragraph at lines 8274--8281 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 8457--8463 []@textrm The @texttt \out{@textttsl literal@texttt }[] @textrm macro would usu -ally be used within the @textsl text[] @textrm part of Underfull \hbox (badness 10000) in paragraph at lines 8490--8495 []@texttt echo=FALSE[] @textrm Whether the R code should be echoed. If @texttt TRUE[] @textit and [98] [99] [100] [101] Chapter 3 [102] [103] [104] [105] [106] [107] Overfull \hbox (22.06111pt too wide) in paragraph at lines 9344--9344 []@texttt 5497 1.9783 R findVarLocInFrame.part.0. lto_priv.0[] [108] Chapter 4 [109] [110] [111] [112] [113] Underfull \hbox (badness 10000) in paragraph at lines 9790--9799 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. [114] [115] [116] Underfull \hbox (badness 10000) in paragraph at lines 10049--10062 @textrm See [][]@texttt https:// clang. llvm. org/ docs/ UsersManual. htm l# controlling-code-generation[][]@textrm , Overfull \hbox (27.28387pt too wide) in paragraph at lines 10066--10067 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [117] [118] Overfull \hbox (56.55324pt too wide) in paragraph at lines 10217--10217 []@texttt setenv ASAN_OPTIONS alloc_dealloc_mismatch=0:detect_leaks=0:detect_odr_violation=0 [] Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 []@textrm This san-i-tizer may be com-bined with the Ad-dress San-i-tizer by Underfull \hbox (badness 10000) in paragraph at lines 10256--10259 @texttt -fsanitize=undefined,address[] @textrm (where both are sup-ported, and we have seen [119] Overfull \hbox (91.04536pt too wide) in paragraph at lines 10371--10371 []@texttt CC = clang -fsanitize=undefined -fno-sanitize=float-divide-by-zero - fno-omit-frame-pointer[] Overfull \hbox (148.53224pt too wide) in paragraph at lines 10372--10372 []@texttt CXX = clang++ -fsanitize=undefined -fno-sanitize=float-divide-by-zer o -fno-omit-frame-pointer -frtti[] Overfull \hbox (160.02962pt too wide) in paragraph at lines 10375--10375 []@texttt SAN_LIBS = $(UBSAN_DIR)/libclang_rt.ubsan_standalone.a $(UBSAN_DIR)/ libclang_rt.ubsan_standalone_cxx.a[] Overfull \hbox (16.31242pt too wide) in paragraph at lines 10383--10383 []@texttt SAN_LIBS = -L$(UBSAN_DIR) -Wl,-rpath,$(UBSAN_DIR) -lclang_rt.ubsan_s tandalone[] [120] Overfull \hbox (50.80455pt too wide) in paragraph at lines 10445--10445 []@texttt Fortran runtime error: Index 1 of dimension 1 of array x above upper bound of 0[] [121] [122] [123] [124] Underfull \hbox (badness 10000) in paragraph at lines 10807--10809 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][]@smallrm : [125] Overfull \hbox (102.54274pt too wide) in paragraph at lines 10863--10863 []@texttt boot.f:61: warning: type of ddot does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (125.53749pt too wide) in paragraph at lines 10882--10882 []@texttt rkpk2.f:77:5: warning: type of dstup does not match original declaration [-Wlto-type-mismatch][] Overfull \hbox (119.7888pt too wide) in paragraph at lines 10893--10893 []@texttt reg.f:78:33: warning: type of dqrdc does not match original declaration [-Wlto-type-mismatch][] [126] Overfull \hbox (22.06111pt too wide) in paragraph at lines 10923--10923 []@texttt Warning: Type mismatch in argument jpvt at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [127] [128] [129] [130] [131] [132] [133] [134] [135] [136] Overfull \hbox (30.03963pt too wide) in paragraph at lines 11789--11789 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [137] [138] Overfull \hbox (39.30717pt too wide) in paragraph at lines 11955--11955 [] @texttt na_omit_xts_func fun = (na_omit_xts_func) R_GetCCallable("xts", "n a_omit_xts");[] [139] [140] [141] [142] [143] Overfull \hbox (16.31242pt too wide) in paragraph at lines 12395--12395 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [144] [145] [146] [147] [148] [149] [150] [151] [152] [153] [154] [155] Underfull \hbox (badness 10000) in paragraph at lines 13649--13664 @texttt R_existsVarInFrame[]@textrm , @texttt R_removeVarFromFrame[]@textrm , @ texttt R_PackageEnvName[]@textrm , @texttt R_IsPackageEnv[]@textrm , [156] [157] [158] [159] Overfull \hbox (27.8098pt too wide) in paragraph at lines 14003--14003 [] @texttt Rf_isNull(TAG(args)) ? "" : Rf_translateChar(PRINTNAME(T AG(args)));[] [160] [161] [162] [163] [164] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14448--14448 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [165] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14516--14516 [] @texttt par = PROTECT(R_getVar(Rf_installChar(STRING_ELT(theta, i)), rho, TRUE));[] [166] [167] [168] [169] Overfull \hbox (39.30717pt too wide) in paragraph at lines 14890--14890 [] @texttt ptr = R_MakeExternalPtr(thisHandle, Rf_install("RODBC_channel"), R_NilValue);[] [170] [171] Overfull \hbox (50.80455pt too wide) in paragraph at lines 15027--15027 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] [172] [173] Chapter 6 [174] [175] [176] [177] Writing index file R-exts.for [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] Overfull \hbox (45.05586pt too wide) in paragraph at lines 17169--17169 [] @texttt SEXP (*hndlr)(SEXP cond, void *hdata) , void *hdata)[] [196] [197] [198] [199] [200] Underfull \hbox (badness 10000) in paragraph at lines 17644--17658 []@textrm The graph-ics sys-tems are ex-posed in head-ers @texttt R_ext/Graphic sEngine.h[]@textrm , @texttt R_ [201] [202] [203] [204] [205] [206] [207] Chapter 7 [208] [209] Chapter 8 [210] [211] Writing index file R-exts.em [212] Overfull \hbox (22.06111pt too wide) in paragraph at lines 18618--18618 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was built with a s tatic libR[] [213] Overfull \hbox (33.55849pt too wide) in paragraph at lines 18676--18676 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 19217--19224 @texttt MACHINE\Software\R-core\R\InstallPath[] @textrm from an ad-min-is-tra- tive in-stall and [220] [221] (Function and variable index) [222] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.vrs [223] [224] [225] [226] [227] [228]) (API index) [229] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aps [230] [231] [232]) (Fortran API index) [233] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.fors ) (Experimental API index) [234] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.aes [235]) (Embedding API index) [236] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.ems) (Concept index) [237] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-exts.cps [238]) [239] ) (see the transcript file for additional information) Output written on R-exts.pdf (246 pages, 1153500 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-intro.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] [34] [35] [36] [37] Chapter 9 [38] [39] Chapter 10 [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 11 [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Chapter 12 [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] Chapter 13 [74] [75] Chapter 14 [76] [77] Underfull \hbox (badness 10000) in paragraph at lines 6493--6498 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6493--6498 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [78] Appendix A [79] [80] [81] Appendix B [82] [83] [84] [85] [86] [87] [88] Appendix C [89] [90] (References) [91] (Function and variable index) [92] No file R-intro.vrs. (Concept index) [93] No file R-intro.cps. [94] ) (see the transcript file for additional information) Output written on R-intro.pdf (97 pages, 568507 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (Preface) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] [34] [35] [36] [37] Chapter 9 [38] [39] Chapter 10 [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 11 [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Chapter 12 [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] Chapter 13 [74] [75] Chapter 14 [76] [77] Underfull \hbox (badness 10000) in paragraph at lines 6493--6498 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6493--6498 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [78] Appendix A [79] [80] [81] Appendix B [82] [83] [84] [85] [86] [87] [88] Appendix C [89] [90] (References) [91] (Function and variable index) [92] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.vrs [93] [94]) (Concept index) [95] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.cps [96]) [97] ) (see the transcript file for additional information) Output written on R-intro.pdf (103 pages, 620479 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-intro.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-intro.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.toc) (Preface) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] Chapter 3 [12] [13] [14] Chapter 4 [15] [16] Chapter 5 [17] [18] [19] [20] [21] [22] [23] [24] Chapter 6 [25] [26] [27] [28] Chapter 7 [29] [30] [31] Chapter 8 [32] [33] [34] [35] [36] [37] Chapter 9 [38] [39] Chapter 10 [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 11 [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Chapter 12 [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] Chapter 13 [74] [75] Chapter 14 [76] [77] Underfull \hbox (badness 10000) in paragraph at lines 6493--6498 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and Underfull \hbox (badness 7064) in paragraph at lines 6493--6498 @texttt \\?\UNC\server\dir1\dir2\file[]@textrm ) are not sup-ported, but they may work in [78] Appendix A [79] [80] [81] Appendix B [82] [83] [84] [85] [86] [87] [88] Appendix C [89] [90] (References) [91] (Function and variable index) [92] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.vrs [93] [94]) (Concept index) [95] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-intro.cps [96]) [97] ) (see the transcript file for additional information) Output written on R-intro.pdf (103 pages, 620486 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-ints.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (27.8098pt too wide) in paragraph at lines 1444--1444 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1445--1445 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1446--1446 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1447--1447 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27] [28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal ly, Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, as Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] Underfull \hbox (badness 10000) in paragraph at lines 3895--3899 []@textrm If true, make use of the [][]@textbf codetools @textrm (@texttt http s:// CRAN. R-project. org/ [47] Underfull \hbox (badness 10000) in paragraph at lines 3929--3934 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c hoice of [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] Chapter 13 [65] [66] (Function and variable index) [67] No file R-ints.vrs. (Concept index) [68] No file R-ints.cps. [69] ) (see the transcript file for additional information) Output written on R-ints.pdf (72 pages, 420942 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc [-1]) [-2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (27.8098pt too wide) in paragraph at lines 1444--1444 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1445--1445 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1446--1446 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1447--1447 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27] [28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal ly, Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, as Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] Underfull \hbox (badness 10000) in paragraph at lines 3895--3899 []@textrm If true, make use of the [][]@textbf codetools @textrm (@texttt http s:// CRAN. R-project. org/ [47] Underfull \hbox (badness 10000) in paragraph at lines 3929--3934 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c hoice of [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] Chapter 13 [65] [66] (Function and variable index) [67] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.vrs [68]) [69] (Concept index) [70] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.cps) [71] ) (see the transcript file for additional information) Output written on R-ints.pdf (75 pages, 469894 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-ints.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-ints.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc [-1]) [-2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] Overfull \hbox (27.8098pt too wide) in paragraph at lines 1444--1444 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (56.55324pt too wide) in paragraph at lines 1445--1445 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (45.05586pt too wide) in paragraph at lines 1446--1446 [] @texttt length(meth.Ops <- nM$^^R.__T__Ops:base^^R) # 71 methods for the Ops (group)generic[] Overfull \hbox (137.03487pt too wide) in paragraph at lines 1447--1447 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [17] [18] [19] [20] [21] Chapter 2 [22] [23] [24] [25] [26] Chapter 3 [27] [28] Chapter 4 [29] [30] Chapter 5 [31] Chapter 6 [32] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm ing been built and in-stalled as a Mac macOS `frame-work'. Specif-i-cal ly, Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, as Underfull \hbox (badness 10000) in paragraph at lines 3709--3716 @textrm frame-works can con-tain mul-ti-ple ver-sions of R. It even-tu-ally re- solves to [45] Chapter 8 [46] Underfull \hbox (badness 10000) in paragraph at lines 3895--3899 []@textrm If true, make use of the [][]@textbf codetools @textrm (@texttt http s:// CRAN. R-project. org/ [47] Underfull \hbox (badness 10000) in paragraph at lines 3929--3934 @textrm the reg-is-tra-tion in-for-ma-tion (num-ber of ar-gu-ments, cor-rect c hoice of [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] Chapter 9 [60] [61] Chapter 10 [62] Chapter 11 [63] Chapter 12 [64] Chapter 13 [65] [66] (Function and variable index) [67] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.vrs [68]) [69] (Concept index) [70] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-ints.cps) [71] ) (see the transcript file for additional information) Output written on R-ints.pdf (75 pages, 469893 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --pdf R-lang.texi This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 255--256 @textbf storage.mode| [3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27] [28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7 [39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] Underfull \hbox (badness 10000) in paragraph at lines 4142--4144 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [46] [47] [48] [49] [50] (References) [51] (Function and variable index) [52] No file R-lang.vrs. (Concept index) [53] No file R-lang.cps. [54] ) (see the transcript file for additional information) Output written on R-lang.pdf (57 pages, 344758 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 255--256 @textbf storage.mode| [3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27] [28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7 [39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] Underfull \hbox (badness 10000) in paragraph at lines 4142--4144 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [46] [47] [48] [49] [50] (References) [51] (Function and variable index) [52] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.vrs [53]) (Concept index) [54] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.cps) [55] ) (see the transcript file for additional information) Output written on R-lang.pdf (60 pages, 386526 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.26 (TeX Live 2024) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (./R-lang.texi (/usr/share/texlive/texmf-dist/tex/texinfo/texinfo.tex Loading texinfo [version 2023-09-19.19]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/builddir/build/BUILD/R-4.6.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, microtype, and turning on texinfo input format.) Writing index file R-lang.vr (/builddir/build/BUILD/R-4.6.2/doc/manual/R-defs.texi (/usr/share/texlive/texmf-dist/tex/texinfo/txi-en.tex)) (/builddir/build/BUILD/R-4.6.2/doc/manual/version.texi) [1{/var/lib/texmf/fonts /map/pdftex/updmap/pdftex.map}] [2] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc [-1] [-2]) [-3] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.toc) Chapter 1 (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 255--256 @textbf storage.mode| [3] [4] [5] [6] [7] Chapter 3 [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] Chapter 4 [21] [22] [23] [24] Chapter 5 [25] [26] [27] [28] [29] [30] Chapter 6 [31] [32] [33] [34] [35] [36] [37] [38] Chapter 7 [39] Chapter 8 [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] Underfull \hbox (badness 10000) in paragraph at lines 4142--4144 []@textrm Up-to-date in-for-ma-tion on the cur-rently ac-cepted for-mats can be found by [46] [47] [48] [49] [50] (References) [51] (Function and variable index) [52] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.vrs [53]) (Concept index) [54] (/builddir/build/BUILD/R-4.6.2/doc/manual/R-lang.cps) [55] ) (see the transcript file for additional information) Output written on R-lang.pdf (60 pages, 386519 bytes). Transcript written on R-lang.log. make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc' + make compact-pdf make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' compacting PDF manuals in doc/manual make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' + make info make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' /usr/bin/texi2any --enable-encoding -I. R-FAQ.texi /usr/bin/texi2any --enable-encoding -I. R-admin.texi /usr/bin/texi2any --enable-encoding -I. R-data.texi /usr/bin/texi2any --enable-encoding -I. R-exts.texi /usr/bin/texi2any --enable-encoding -I. R-intro.texi /usr/bin/texi2any --enable-encoding -I. R-ints.texi /usr/bin/texi2any --enable-encoding -I. R-lang.texi make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc' + for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1 + iconv -f iso-8859-1 -t utf-8 -o doc/manual/R-intro.info.utf8 doc/manual/R-intro.info + mv doc/manual/R-intro.info.utf8 doc/manual/R-intro.info + for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1 + iconv -f iso-8859-1 -t utf-8 -o doc/manual/R-FAQ.info.utf8 doc/manual/R-FAQ.info + mv doc/manual/R-FAQ.info.utf8 doc/manual/R-FAQ.info + for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1 + iconv -f iso-8859-1 -t utf-8 -o doc/FAQ.utf8 doc/FAQ + mv doc/FAQ.utf8 doc/FAQ + for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1 + iconv -f iso-8859-1 -t utf-8 -o doc/manual/R-admin.info.utf8 doc/manual/R-admin.info + mv doc/manual/R-admin.info.utf8 doc/manual/R-admin.info + for i in doc/manual/R-intro.info doc/manual/R-FAQ.info doc/FAQ doc/manual/R-admin.info doc/manual/R-exts.info-1 + iconv -f iso-8859-1 -t utf-8 -o doc/manual/R-exts.info-1.utf8 doc/manual/R-exts.info-1 + mv doc/manual/R-exts.info-1.utf8 doc/manual/R-exts.info-1 + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.QQLTr0 + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 ++ dirname /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd R-4.6.2 + make DESTDIR=/builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 install install-pdf install-info mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/m4' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/m4' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/tools' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tools' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc' installing doc ... mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/man/man1 make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/html' installing doc/html ... mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/html make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/html' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' installing doc/manual ... mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/manual mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/manual/images make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/etc' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/etc installing etc ... make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/etc' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/share' installing share ... mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/R mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/bibliographies mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/dictionaries mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/encodings mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/java mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/licenses mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/make mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/Rd mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/Rd/macros mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/sh mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/texmf mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/texmf/bibtex/bib mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/texmf/bibtex/bst mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/texmf/tex/latex make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/share' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/scripts' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/bin mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/scripts' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/include/R make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include/R_ext' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/include/R/R_ext make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include/R_ext' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra/blas' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra/blas' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra/tre' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra/tre' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra/tzone' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra/tzone' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra/xdr' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra/xdr' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/extra/intl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra/intl' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/extra' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/appl' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/appl' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/nmath' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/nmath' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/unix' gcc -std=gnu23 -I. -I../../src/include -I../../src/include -I/usr/local/include -DHAVE_CONFIG_H -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -DR_HOME='"/usr/lib64/R"' \ -o Rscript ./Rscript.c mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/pkgconfig make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/unix' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/exec make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/main' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/lib make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/main' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/modules make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/internet' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/lapack' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules/X11' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/modules' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/library' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library installing packages ... building HTML index ... make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/library' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' make[1]: Nothing to be done for 'install'. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' installing R manuals in PDF format ... make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/doc/manual' mkdir -p -- /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/info /usr/bin/install -c -m 644 "./dir" "/builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/info" installing R info pages ... updating '/usr/share/info/dir' ... make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/doc/manual' + rm -f /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/info/dir + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R + install -p CAPABILITIES /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R + cd src/nmath/standalone + make install DESTDIR=/builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/src/include' make[1]: 'Rmath.h' is up to date. make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/src/include' + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/etc/ld.so.conf.d + echo /usr/lib64/R/lib + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/library + touch -r README /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/CAPABILITIES + touch -r README doc/manual/R-FAQ.pdf doc/manual/R-admin.pdf doc/manual/R-data.pdf doc/manual/R-exts.pdf doc/manual/R-intro.pdf doc/manual/R-ints.pdf doc/manual/R-lang.pdf doc/manual/fullrefman.pdf + touch -r README /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/bin/R + sed -i 's|\..\/\..|/usr/lib64/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/html/packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/bkde.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/bkde2D.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/bkfe.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/dpih.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/dpik.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/dpill.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/KernSmooth/html/locpoly.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Aids2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Animals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Boston.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Cars93.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Cushings.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/DDT.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/GAGurine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Insurance.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/MASS-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Melanoma.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Null.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/OME.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Pima.tr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Rabbit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Rubber.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/SP500.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Sitka.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Sitka89.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Skye.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/Traffic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/UScereal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/UScrime.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/VA.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/abbey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/accdeaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/addterm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/anorexia.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/anova.negbin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/area.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/bacteria.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/bandwidth.nrd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/bcv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/beav1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/beav2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/biopsy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/birthwt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/boxcox.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cabbages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/caith.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cement.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/chem.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/con2tr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/confint.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/contr.sdif.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/coop.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/corresp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cov.rob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cov.trob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/cpus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/crabs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/deaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/denumerate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/dose.p.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/drivers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/dropterm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/eagles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/epil.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/eqscplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/farms.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/fgl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/fitdistr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/forbes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/fractions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/galaxies.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/gamma.dispersion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/gamma.shape.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/gehan.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/genotype.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/geyser.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/gilgais.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/ginv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/glm.convert.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/glm.nb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/glmmPQL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/hills.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/hist.scott.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/housing.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/huber.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/hubers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/immer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/isoMDS.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/kde2d.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/lda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/ldahist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/leuk.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/lm.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/lm.ridge.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/loglm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/loglm1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/logtrans.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/lqs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/mammals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/mca.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/mcycle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/menarche.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/michelson.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/minn38.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/motors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/muscle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/mvrnorm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/negative.binomial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/newcomb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/nlschools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/npk.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/npr1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/oats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/painters.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/pairs.lda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/parcoord.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/petrol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/phones.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/plot.lda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/plot.mca.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/polr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/predict.glmmPQL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/predict.lda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/predict.lqs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/predict.mca.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/predict.qda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/profile.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/qda.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/quine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/rational.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/renumerate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/rlm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/rms.curv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/rnegbin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/road.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/rotifer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/sammon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/ships.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/shoes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/shrimp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/shuttle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/snails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/stdres.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/steam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/stepAIC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/stormer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/studres.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/summary.loglm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/summary.negbin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/summary.rlm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/survey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/synth.tr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/theta.md.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/topo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/truehist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/ucv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/waders.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/whiteside.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/width.SJ.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/write.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/MASS/html/wtloss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/BunchKaufman-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/BunchKaufman-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/CAex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/CHMfactor-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Cholesky-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Cholesky-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/CsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Diagonal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Hilbert.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/KNex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/KhatriRao.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Matrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Matrix-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Matrix-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Matrix-notyet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/MatrixClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/MatrixFactorization-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/RsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Schur-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/Schur-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/TsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/USCounties.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/abIndex-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/abIseq.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/all.equal-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/asUniqueT.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/band-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/bandSparse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/bdiag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/boolmatmult-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/cbind2-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/chol-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/chol2inv-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/coerce-methods-SparseM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/coerce-methods-graph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/colSums-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/condest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ddenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ddiMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/denseLU-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/denseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dgCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dgRMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dgTMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dgeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/diagU2N.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/diagonalMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dimScale.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dmperm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dpoMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/drop0.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dsCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dsRMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dtCMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dtRMatrix-class-sparse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dtpMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/dtrMatrix-class-dense.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/expand-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/expm-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/externalFormats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/facmul-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/fastMisc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/forceSymmetric-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/formatSparseM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/generalMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/image-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/indMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/index-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/invertPerm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/is.na-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/is.null.DN.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/isSymmetric-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/isTriangular-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/kronecker-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ldenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ldiMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/lgeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/lsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/lsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ltrMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/lu-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/mat2triplet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/matmult-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/nMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ndenseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/nearPD.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ngeMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/nnzero-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/norm-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/nsparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/nsyMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/ntrMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/pMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/pack-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/packedMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/printSpMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/qr-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/rankMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/rcond-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/rep2abI.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/rleDiff-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/rsparsematrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/solve-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/spMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparse.model.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseLU-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseQR-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseVector-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/sparseVector.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/subassign-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/subscript-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/symmetricMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/symmpart-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/triangularMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/unpackedMatrix-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/updown-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/Matrix/html/wrld_1deg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Arithmetic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/AsIs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Bessel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/CallExternal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Colon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Comparison.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Constants.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Cstack_info.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/DateTimeClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Dates.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Encoding.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/EnvVar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Extract.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Extract.factor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Extract.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Extremes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Foreign-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Foreign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Hyperbolic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ISOdatetime.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/InternalMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/La_library.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/La_version.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Last.value.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Log.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Logic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/LongVectors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/MathFun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Memory-limits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Memory.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/NA.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/NULL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/NumericConstants.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Ops.Date.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Paren.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Platform.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Primitive.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Quotes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Random-user.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Random.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/RdUtils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Recall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Reserved.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Rhome.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Round.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/S3method.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Signals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Special.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/StackOverflows.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Startup.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Syntax.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.getenv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.getpid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.glob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.info.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.localeconv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.readlink.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.setFileTime.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.setenv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.sleep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.time.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Sys.which.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Tailcall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Trig.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/UTF8filepaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/UseMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Vectorize.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/Version.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/abbreviate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/agrep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/all.equal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/all.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/allnames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/any.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/aperm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/append.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/apply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/args.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/array.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/array2DF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/as.Date.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/as.POSIXlt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/as.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/as.environment.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/as.function.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/asplit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/assign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/assignOps.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/attach.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/attr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/attributes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/autoload.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/backsolve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/balancePOSIXlt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/base-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/base-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/base-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/base-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/basename.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/bincode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/bindenv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/bitwise.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/body.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/bquote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/browser.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/browserText.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/builtins.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/by.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/c.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/call.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/callCC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/capabilities.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/cat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/cbind.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/char.expand.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/character.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/charmatch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/chartr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/chkDots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/chol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/chol2inv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/chooseOpsMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/col.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/colSums.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/colnames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/commandArgs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/comment.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/complex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/conditions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/conflicts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/connections.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/contributors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/copyright.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/crossprod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/cumsum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/curlGetHeaders.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/cut.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/cut.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/data.class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/data.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dataframeHelpers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/date.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dcf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/debug.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/declare.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/delayedAssign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/deparse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/deparseOpts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/det.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/detach.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dev.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/diag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/diff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/difftime.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dimnames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/do.call.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dontCheck.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/double.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dput.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/drop.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/droplevels.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dump.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/duplicated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/dynload.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/eapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/eigen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/encodeString.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/environment.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/eval.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/exists.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/expand.grid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/expression.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/extSoftVersion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/factor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/file.access.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/file.choose.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/file.info.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/file.path.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/file.show.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/files.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/files2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/find.package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/findInterval.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/force.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/forceAndCall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/formals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/format.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/format.info.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/format.pval.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/formatDL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/formatc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/function.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/funprog.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gc.time.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gctorture.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/get.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/getCallingDLL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/getDLLRegisteredRoutines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/getLoadedDLLs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/getNativeSymbolInfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gettext.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/getwd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/grep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/grepRaw.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/groupGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/grouping.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/gzcon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/hexmode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/iconv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/icuSetCollate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/identical.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/identity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ifelse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/integer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/interaction.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/interactive.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/invisible.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.finite.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.function.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.language.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.recursive.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.single.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/is.unsorted.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/isS4.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/isSymmetric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/jitter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/kappa.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/kronecker.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/l10n_info.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/labels.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/lapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/lazyload.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/length.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/lengths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/levels.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/libPaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/libcurlVersion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/library.dynam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/library.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/license.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/list.files.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/list.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/list2DF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/list2env.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/load.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/locales.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/logical.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/lower.tri.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/make.names.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/make.unique.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/mapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/marginSums.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/mat.or.vec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/match.arg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/match.call.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/match.fun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/match.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/matmult.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/maxCol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/mean.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/memCompress.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/memlimits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/memory.profile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/merge.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/message.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/missing.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/mode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/mtfrm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/name.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/names.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/nargs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/nchar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/nlevels.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/noquote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/norm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/normalizePath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/notyet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/nrow.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-dblcolon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-hooks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-load.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-reflect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/ns-topenv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/numeric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/numeric_version.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/octmode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/on.exit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/order.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/outer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/parse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/paste.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/path.expand.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pcre_config.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pipeOp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/plot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pmatch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/polyroot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pos.to.env.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pretty.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/print.dataframe.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/print.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/print.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/prmatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/proc.time.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/prod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/proportions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/pushBack.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/qr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/qraux.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/quit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/range.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rank.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/raw.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rawConnection.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rawConversion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readBin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readChar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readLines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readRDS.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readRenviron.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/readline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/reg.finalizer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/regex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/regmatches.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/replace.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rev.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/round.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/row.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/row.names.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/rowsum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sQuote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sample.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/save.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/scale.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/scan.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/search.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/seek.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/seq.Date.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/seq.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/seq.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sequence.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/serialize.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/setTimeLimit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sets.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/shQuote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/showConnections.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sink.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/slice.index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/slotOp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/socketSelect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/solve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sort.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sort_by.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/source.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/split.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sprintf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/srcfile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/standardGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/startsWith.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/stop.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/stopifnot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strptime.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strrep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strsplit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strtoi.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strtrim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/structure.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/strwrap.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/subset.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/substitute.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/substr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/summary.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/svd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sweep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/switch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sys.parent.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/sys.source.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/system.file.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/system.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/system.time.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/system2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/t.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/tabulate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/tapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/taskCallback.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/taskCallbackManager.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/taskCallbackNames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/tempfile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/textconnections.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/tilde.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/timezones.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/toString.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/trace.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/traceback.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/tracemem.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/transform.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/trimws.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/try.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/typeof.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/unique.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/units.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/unlink.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/unlist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/unname.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/use.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/userhooks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/utf8Conversion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/validUTF8.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/vector.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/warning.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/warnings.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/weekday.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/which.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/which.min.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/with.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/withVisible.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/write.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/writeLines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/xtfrm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/zMachine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/zScript.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/zapsmall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/zpackages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/base/html/zutils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/EEF.profile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/Imp.Estimates.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/abc.ci.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/acme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/aids.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/aircondit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/amis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/aml.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/beaver.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/bigcity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/boot-practicals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/boot.array.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/boot.ci.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/boot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/brambles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/breslow.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/calcium.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cane.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/capability.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/catsM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cav.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cd4.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cd4.nested.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/censboot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/channing.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/claridge.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cloth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/co.transfer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/coal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/corr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cum3.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/cv.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/darwin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/dogs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/downs.bc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/ducks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/empinf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/envelope.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/exp.tilt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/fir.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/freq.array.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/frets.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/glm.diag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/glm.diag.plots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/gravity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/hirose.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/imp.weights.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/inv.logit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/islay.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/jack.after.boot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/k3.linear.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/linear.approx.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/lines.saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/logit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/manaus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/melanoma.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/motor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/neuro.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/nitrofen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/nodal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/norm.ci.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/nuclear.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/paulsen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/plot.boot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/poisons.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/polar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/print.boot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/print.bootci.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/print.saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/print.simplex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/remission.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/saddle.distn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/saddle.distn.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/saddle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/salinity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/simplex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/simplex.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/smooth.f.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/sunspot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/survival.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/tau.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/tilt.boot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/tsboot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/tuna.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/urine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/var.linear.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/boot/html/wool.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/SOM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/batchSOM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/condense.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/knn.cv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/knn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/knn1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/lvq1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/lvq2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/lvq3.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/lvqinit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/lvqtest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/multiedit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/olvq1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/reduce.nn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/class/html/somgrid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/agnes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/agnes.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/agriculture.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/animals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/bannerplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/chorSub.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/clara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/clara.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/clusGap.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/clusplot.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/clusplot.partition.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/cluster-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/coef.hclust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/daisy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/diana.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/dissimilarity.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/ellipsoidhull.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/fanny.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/fanny.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/flower.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/lower.to.upper.tri.inds.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/medoids.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/mona.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/mona.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/pam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/pam.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/partition.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/plantTraits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/plot.agnes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/plot.diana.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/plot.mona.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/plot.partition.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/pltree.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/pluton.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/predict.ellipsoid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.agnes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.clara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.diana.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.dissimilarity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.fanny.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.mona.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/print.pam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/ruspini.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/silhouette.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/sizeDiss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/summary.agnes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/summary.clara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/summary.diana.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/summary.mona.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/summary.pam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/twins.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/volume.ellipsoid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/votes.repub.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/cluster/html/xclara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/codetools/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/codetools/html/checkUsage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/codetools/html/codetools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/codetools/html/findGlobals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/codetools/html/showTree.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/compiler/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/compiler/html/compile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/AirPassengers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/BJsales.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/BOD.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/ChickWeight.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/DNase.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/EuStockMarkets.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Formaldehyde.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/HairEyeColor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Harman23.cor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Harman74.cor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Indometh.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/InsectSprays.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/JohnsonJohnson.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/LakeHuron.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/LifeCycleSavings.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Loblolly.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Nile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Orange.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/OrchardSprays.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/PlantGrowth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Puromycin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Theoph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/Titanic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/ToothGrowth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/UCBAdmissions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/UKDriverDeaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/UKLungDeaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/UKgas.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/USAccDeaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/USArrests.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/USJudgeRatings.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/USPersonalExpenditure.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/VADeaths.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/WWWusage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/WorldPhones.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/ability.cov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/airmiles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/airquality.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/anscombe.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/attenu.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/attitude.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/austres.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/beavers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/cars.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/chickwts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/co2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/crimtab.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/datasets-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/discoveries.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/esoph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/euro.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/eurodist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/faithful.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/freeny.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/gait.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/infert.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/iris.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/islands.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/lh.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/longley.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/lynx.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/morley.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/mtcars.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/nhtemp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/nottem.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/npk.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/occupationalStatus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/penguins.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/precip.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/presidents.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/pressure.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/quakes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/randu.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/rivers.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/rock.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/sleep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/stackloss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/state.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/sunspot.month.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/sunspot.year.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/sunspots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/swiss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/treering.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/trees.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/uspop.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/volcano.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/warpbreaks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/women.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/datasets/html/zCO2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/lookup.xport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.S.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.arff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.dbf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.dta.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.epiinfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.mtp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.octave.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.spss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.ssd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.systat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/read.xport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/write.arff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/write.dbf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/write.dta.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/foreign/html/write.foreign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/Devices.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/Hershey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/Japanese.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/Type1Font.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/adjustcolor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/as.graphicsAnnot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/as.raster.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/axisTicks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/boxplot.stats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/bringToTop.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/cairo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/cairoSymbolFont.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/check.options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/chull.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/cm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/col2rgb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/colorRamp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/colors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/contourLines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/convertColor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/densCols.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.capabilities.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.capture.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.flush.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.interactive.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev.size.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/dev2bitmap.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/devAskNewPage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/embedFonts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/extendrange.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/getGraphicsEvent.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/glyphInfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/grDevices-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/grDevices-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/grDevices-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/grSoftVersion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/gray.colors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/gray.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/hcl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/hsv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/make.rgb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/msgWindow.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/n2mfrow.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/nclass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/palette.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/palettes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/pdf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/pdf.options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/pictex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/plotmath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/png.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/postscript.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/postscriptFonts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/pretty.Date.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/ps.options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/quartz.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/quartzFonts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/recordGraphics.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/recordplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/rgb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/rgb2hsv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/savePlot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/trans3d.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/windows.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/windows.options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/windowsFonts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/x11.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/x11Fonts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/xy.coords.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/xyTable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grDevices/html/xyz.coords.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/abline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/arrows.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/assocplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/axTicks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/axis.POSIXct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/axis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/barplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/box.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/boxplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/boxplot.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/bxp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/cdplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/clip.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/contour.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/convertXY.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/coplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/curve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/dotchart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/filled.contour.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/fourfoldplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/graphics-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/graphics-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/grid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/hist.POSIXt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/hist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/identify.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/image.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/layout.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/legend.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/lines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/locator.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/matplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/mosaicplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/mtext.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/pairs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/panel.smooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/par.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/persp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/pie.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.dataframe.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.design.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.factor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.raster.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.window.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plot.xy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/plothistogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/points.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/polygon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/polypath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/rasterImage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/rect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/rug.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/screen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/segments.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/smoothScatter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/spineplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/stars.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/stem.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/stripchart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/strwidth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/sunflowerplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/symbols.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/text.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/title.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/units.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/xspline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/graphics/html/zAxis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/Grid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/absolute.size.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/arrow.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/as.mask.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/calcStringMetric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/current.viewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/dataViewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/depth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/deviceLoc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/drawDetails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/editDetails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/editViewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/explode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/gEdit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/gPath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/getNames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/gpar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.DLapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.add.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.bezier.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.cap.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.circle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.clip.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.convert.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.copy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.curve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.delay.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.display.list.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.draw.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.edit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.force.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.function.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.get.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.glyph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.grab.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.grep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.grill.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.grob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.group.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.layout.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.lines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.locator.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.ls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.move.to.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.newpage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.null.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.pack.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.path.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.place.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.plot.and.legend.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.points.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.polygon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.pretty.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.raster.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.record.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.rect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.refresh.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.remove.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.reorder.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.roundrect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.segments.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.set.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.show.layout.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.show.viewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.stroke.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.text.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.xaxis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.xspline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grid.yaxis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/gridCoords.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grobCoords.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grobName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grobWidth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/grobX.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/legendGrob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/makeContent.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/patterns.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/plotViewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/resolveRasterSize.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/showGrob.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/showViewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/stringWidth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unit.c.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unit.length.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unit.pmin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unit.rep.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/unitType.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/valid.just.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/validDetails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/viewport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/viewportTransform.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/viewports.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/vpPath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/widthDetails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/xDetails.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/grid/html/xsplinePoints.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/Lattice.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/Rows.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/USMortality.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/axis.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/banking.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/barchart.table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/barley.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/cloud.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/draw.colorkey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/draw.key.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/environmental.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/ethanol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/histogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/interaction.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/lattice.options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/latticeParseFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/level.colors.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/levelplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/llines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/lset.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/make.groups.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/melanoma.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/oneway.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/packet.panel.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.axis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.barchart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.bwplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.cloud.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.densityplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.dotplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.functions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.histogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.levelplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.loess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.number.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.pairs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.parallel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.qqmath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.qqmathline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.smoothScatter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.spline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.stripplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.superpose.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.violin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/panel.xyplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/prepanel.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/prepanel.functions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/print.trellis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/qq.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/qqmath.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/rfs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/shingles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/simpleKey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/simpleTheme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/singer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/splom.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/standard.theme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/strip.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/tmd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/trellis.device.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/trellis.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/trellis.par.get.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/update.trellis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/utilities.3d.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/xyplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/lattice/html/xyplot.ts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/BasicClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Classes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Classes_Details.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Documentation.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/EmptyMethodsList-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/EnvironmentClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/GenericFunctions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Introduction.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/LanguageClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/LinearMethodsList-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/MethodDefinition-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/MethodSupport.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/MethodWithNext-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Methods_Details.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Methods_for_Nongenerics.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/Methods_for_S3.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/NextMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/ObjectsWithPackage-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/RClassUtils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/RMethodUtils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/S3Part.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/S4groupGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/SClassExtension-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/StructureClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/TraceClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/as.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/callGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/canCoerce.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/cbind2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/className.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/classRepresentation-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/classesToAM.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/dotsMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/evalSource.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/findClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/findMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/fixPrevious.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/genericFunction-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/getClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/getMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/getPackageName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/hasArg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/implicitGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/inheritedSlotNames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/initialize-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/is.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/isSealedMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/languageEl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/loadMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/localRefClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/method.skeleton.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/methodUtilities.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/methods-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/methods-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/methods-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/new.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/nonStructure-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/promptClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/promptMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/refClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/removeMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/representation.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/selectSuperClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setAs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setClassUnion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setGroupGeneric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setIs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setLoadActions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setMethod.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setOldClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/setSClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/show.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/showMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/signature-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/slot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/stdRefClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/substituteDirect.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/testInheritedMethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/validObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/methods/html/zBasicFunsList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Beta.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/FFdes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/NCV.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.cr.smooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Predict.matrix.soap.film.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Rrank.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Sl.initial.repara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Sl.repara.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Sl.setup.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/Tweedie.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/XWXd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/anova.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/bam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/bam.update.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/bandchol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/bcg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/blas.thread.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/bug.reports.mgcv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/cSplineDes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/chol.down.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/choose.k.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/clog.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/cnorm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/columb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/concurvity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/coxpht.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/cpois.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/dDeta.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/dpnorm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/dppois.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/exclude.too.far.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/extract.lme.cov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/factor.smooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/family.mgcv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/fix.family.link.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/fixDependence.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/formXtViX.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/formula.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/fs.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.check.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.convergence.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.fit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.fit3.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.fit5.post.proc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.mh.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.models.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.outer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.reparam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.scale.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.selection.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.side.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam.vcomp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gam2objective.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gamObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gamSim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gamlss.etamu.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gamlss.gH.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gamm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gammals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gaulss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/get.var.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gevlss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gfam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/ginla.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/gumbls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/identifiability.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/in.out.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/inSide.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/influence.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/initial.sp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/interpret.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/jagam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/k.check.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/ldTweedie.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/ldetS.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/linear.functional.terms.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/logLik.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/lp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/ls.size.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/magic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/magic.post.proc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mchol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mgcv-FAQ.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mgcv-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mgcv-parallel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mini.roots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/missing.data.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/model.matrix.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mono.con.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mroot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/multinom.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/mvn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/negbin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/new.name.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/notExp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/notExp2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/null.space.dimension.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/ocat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/one.se.rule.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/pcls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/pdIdnot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/pdTens.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/pen.edf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/place.knots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/plot.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/polys.plot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/predict.bam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/predict.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/print.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/psum.chisq.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/qq.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/rTweedie.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/random.effects.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/residuals.gam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/rig.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/rmvn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/s.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/scasm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/scat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/sdiag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/shash.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/single.index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/slanczos.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ad.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.bs.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.cr.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ds.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.fs.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.gp.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.mrf.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.ps.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.re.smooth.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/html/smooth.construct.so.smooth.spec.html + for i in 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/builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/ACF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/ACF.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Alfalfa.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Assay.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/BodyWeight.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Cefamandole.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Coef.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Covariate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Covariate.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Dialyzer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Dim.corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Dim.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Dim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Dim.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Earthquake.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Extract.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Fatigue.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Gasoline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Glucose.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Glucose2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Gun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/IGF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Initialize.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/LDEsysMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Machines.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/MathAchSchool.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/MathAchieve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Matrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Meat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Milk.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Muscle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Names.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Names.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Names.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Names.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Names.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Nitrendipene.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Oats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Orthodont.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Ovary.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Oxboys.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Oxide.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/PBG.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Phenobarb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Pixel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Quinidine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Rail.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/RatPupWeight.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Relaxin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Remifentanil.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Soybean.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Spruce.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Tetracycline1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Tetracycline2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/VarCorr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corExp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corGaus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corLin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corRatio.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.corSpher.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.default.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Variogram.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Wafer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Wheat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/Wheat2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/allCoef.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/anova.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/anova.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/as.matrix.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/as.matrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/as.matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/asOneFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/asTable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/augPred.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/balancedGrouped.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/bdf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.gnls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/coef.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/collapse.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/collapse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/compareFits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/comparePred.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corAR1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corARMA.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corCAR1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corCompSymm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corExp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corFactor.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corFactor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corGaus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corLin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corMatrix.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corMatrix.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corMatrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corNatural.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corRatio.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corSpatial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corSpher.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/corSymm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/ergoStool.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fdHess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fitted.nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fixed.effects.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/fixef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/formula.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/formula.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/formula.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getCovariate.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getCovariate.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getCovariate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getCovariate.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getCovariateFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getData.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getData.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getData.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroups.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getGroupsFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getResponse.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getResponseFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/getVarCov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gls-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/glsControl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/glsObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gnls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gnlsControl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gnlsObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/groupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/gsummary.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/intervals.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/intervals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/intervals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/intervals.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/isBalanced.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/isInitialized.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lmList.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lme.groupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lme.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lmeControl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lmeObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logDet.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logDet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logDet.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logDet.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.gnls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/logLik.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/model.matrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/needUpdate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/needUpdate.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlme-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlme.nlsList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlmeControl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlmeObject.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlsList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/nlsList.selfStart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pairs.compareFits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pairs.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pairs.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdCompSymm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdConstruct.pdBlocked.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdDiag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdFactor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdFactor.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdIdent.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdLogChol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdMatrix.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdNatural.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pdSymm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/phenoModel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.ACF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.Variogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.augPred.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.compareFits.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.intervals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.nffGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.nfnGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.nmGroupedData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/plot.ranef.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/pooledSD.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/predict.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/predict.gnls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/predict.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/predict.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/predict.nlme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/print.summary.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/print.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/qqnorm.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/qqnorm.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/quinModel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/random.effects.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/ranef.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/ranef.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/recalc.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/recalc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/recalc.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/recalc.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/recalc.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.gnlsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/residuals.nlmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/simulate.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/solve.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/solve.reStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/splitFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.corStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.lmList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.lme.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.nlsList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.pdMat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/summary.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/update.modelStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/update.varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varComb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varConstPower.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varConstProp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varExp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varFixed.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varFunc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varIdent.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varPower.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varWeights.glsStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varWeights.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nlme/html/varWeights.lmeStruct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/class.ind.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/multinom.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/nnet.Hess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/nnet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/predict.nnet.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/nnet/html/which.is.max.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/RngStream.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/children.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/clusterApply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/detectCores.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/makeCluster.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/mcaffinity.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/mcfork.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/mclapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/mcparallel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/parallel-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/pvec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/sendData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/parallel/html/splitIndices.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/car.test.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/car90.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/cu.summary.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/kyphosis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/labels.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/meanvar.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/na.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/path.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/plot.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/plotcp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/post.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/predict.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/print.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/printcp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/prune.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/residuals.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rpart-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rpart.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rpart.exp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rpart.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/rsq.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/snip.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/solder.balance.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/stagec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/summary.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/text.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/rpart/html/xpred.rpart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/Kaver.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/Kenvl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/Kfn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/Psim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/SSI.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/Strauss.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/anova.trls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/correlogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/expcov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/ppgetregion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/ppinit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/pplik.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/ppregion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/predict.trls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/prmat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/semat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/surf.gls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/surf.ls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/topo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/trls.influence.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/trmat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/spatial/html/variogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/asVector.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/backSpline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/bs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/interpSpline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/ns.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/periodicSpline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/polySpline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/predict.bSpline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/predict.bs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/splineDesign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/splineKnots.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/splineOrder.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/splines-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/splines/html/xyVector.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/AIC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ARMAacf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ARMAtoMA.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Beta.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Binomial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Cauchy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Chisquare.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Distributions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Exponential.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Fdist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/GammaDist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Geometric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Hypergeometric.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/IQR.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/KalmanLike.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Logistic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Lognormal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Multinom.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/NLSstAsymptotic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/NLSstClosestX.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/NLSstLfAsymptote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/NLSstRtAsymptote.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/NegBinomial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Normal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Pair.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Poisson.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSD.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSasymp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSasympOff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSasympOrig.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSbiexp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSfol.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSfpl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSgompertz.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSlogis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSmicmen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SSweibull.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/SignRank.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Smirnov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/StructTS.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/TDist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Tukey.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/TukeyHSD.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Uniform.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Weibull.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/Wilcoxon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/acf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/acf2AR.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/add1.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/addmargins.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/aggregate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/alias.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/anova.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/anova.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/anova.lm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/anova.mlm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ansari.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/aov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/approxfun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ar.ols.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/arima.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/arima.sim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/arima0.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/as.hclust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/asOneSidedFormula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ave.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/bandwidth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/bartlett.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/binom.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/biplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/biplot.princomp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/birthday.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/box.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cancor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/case.names.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/checkMFClasses.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/chisq.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cmdscale.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/coef.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/complete.cases.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/confint.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/constrOptim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/contrast.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/contrasts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/convolve.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cophenetic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cor.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cov.wt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cpgram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/cutree.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/decompose.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/delete.response.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/dendrapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/density.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/deriv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/deviance.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/df.residual.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/diffinv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/dist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/dummy.coef.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ecdf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/eff.aovlist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/effects.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/embed.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/expand.model.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/extractAIC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/factanal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/factor.scope.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/family.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/fft.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/filter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/fisher.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/fitted.values.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/fivenum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/fligner.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/formula.nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/free1way.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/friedman.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ftable.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ftable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/getInitial.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/glm.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/glm.summaries.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/hclust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/heatmap.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/identify.hclust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/influence.measures.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/integrate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/interaction.plot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/is.empty.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/isoreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/kernapply.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/kernel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/kmeans.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/kruskal.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ks.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ksmooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lag.plot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/line.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/listof.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lm.influence.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lm.summaries.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lmfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/loadings.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/loess.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/loess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/logLik.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/loglin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lowess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ls.diag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ls.print.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/lsfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mad.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mahalanobis.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/make.link.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/makepredictcall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/manova.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mantelhaen.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mauchly.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mcnemar.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/median.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/medpolish.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/model.extract.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/model.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/model.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/model.tables.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/monthplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/mood.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/na.action.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/na.contiguous.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/na.fail.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nafns.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/naprint.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nextn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nlm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nlminb.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nls.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/nobs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/numericDeriv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/offset.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/oneway.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/optim.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/optimize.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/order.dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/p.adjust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/pairwise.prop.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/pairwise.t.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/pairwise.table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/pairwise.wilcox.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.acf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.density.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.isoreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.lm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.ppr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.profile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.profile.nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.spec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.stepfun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/plot.ts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/poisson.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/poly.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/power.anova.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/power.free1way.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/power.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/power.prop.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/power.t.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/pp.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ppoints.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ppplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ppr.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/prcomp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.HoltWinters.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.arima.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.lm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.loess.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/predict.smooth.spline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/preplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/princomp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/print.power.htest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/print.ts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/printCoefmat.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/profile.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/profile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/profile.nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/proj.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/prop.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/prop.trend.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/qqnorm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/quade.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/quantile.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/r2dtable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/rWishart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/read.ftable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/rect.hclust.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/relevel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/reorder.dendrogram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/reorder.factor.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/replications.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/reshape.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/residuals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/runmed.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/scatter.smooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/screeplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/sd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/se.contrast.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/selfStart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/setNames.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/shapiro.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/sigma.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/simulate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/smooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/smooth.spline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/smoothEnds.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/sortedXyData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/spec.ar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/spec.pgram.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/spec.taper.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/spectrum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/splinefun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/start.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stat.anova.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stats-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stats-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stats-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/step.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stepfun.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/stlmethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.aov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.glm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.lm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.manova.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.nls.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/summary.princomp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/supsmu.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/symnum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/t.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/termplot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/terms.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/terms.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/terms.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/time.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/toeplitz.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ts-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ts.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ts.plot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/ts.union.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/tsSmooth.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/tsdiag.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/tsp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/uniroot.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/update.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/update.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/var.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/varimax.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/vcov.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/weighted.mean.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/weighted.residuals.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/weights.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/wilcox.test.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/window.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/xtabs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats/html/zC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/coef-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/confint-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/logLik-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/mle-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/mle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/plot-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/profile-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/profile.mle-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/show-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/stats4-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/summary-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/summary.mle-class.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/update-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/stats4/html/vcov-methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/Surv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/Surv2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/Survmethods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/aareg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/aeqSurv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/aggregate.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/agreg.fit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/aml.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/anova.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/attrassign.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/basehaz.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/bladder.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/blogit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/brier.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cgd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cgd0.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cipoisson.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/clogit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cluster.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/colon.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/concordance.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/concordancefit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/cox.zph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxph.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxph.detail.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxph.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxph.wtest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxphms.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/coxsurv.fit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/diabetic.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/dsurvreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/finegray.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/flchain.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/frailty.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/fromtimeline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/gbsg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/heart.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/hoel.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/is.ratetable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/kidney.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/levels.Surv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/lines.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/logLik.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/logan.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/lung.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/lvcf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/mgus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/mgus2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/model.frame.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/model.matrix.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/myeloid.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/myeloma.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/nafld.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/neardate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/nostutter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/nsk.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/nwtco.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/ovarian.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/pbc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/pbcseq.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/plot.aareg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/plot.cox.zph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/plot.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/predict.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/predict.survreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/print.aareg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/print.summary.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/print.summary.survexp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/print.summary.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/print.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/pseudo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/pspline.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/pyears.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/quantile.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/ratetable.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/ratetableDate.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/rats.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/rats2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/reliability.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/residuals.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/residuals.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/residuals.survreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/retinopathy.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/rhDNase.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/ridge.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/rotterdam.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/royston.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/rttright.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/solder.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/stanford2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/statefig.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/strata.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/summary.aareg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/summary.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/summary.pyears.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/summary.survexp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/summary.survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survSplit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survcheck.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survcondense.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survdiff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survexp.fit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survexp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survexp.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survexp.us.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit.formula.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit.matrix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit0.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfit_confint.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survfitcoxph.fit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survival-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survival-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survobrien.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survreg.control.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survreg.distributions.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survreg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survreg.object.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/survregDtest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/tcut.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/tmerge.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/tobin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/transplant.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/udca.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/untangle.specials.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/uspop2.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/vcov.coxph.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/veteran.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/xtfrm.Surv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/yates.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/survival/html/yates_setup.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/TclInterface.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/TkCommands.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/TkWidgetcmds.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/TkWidgets.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tclServiceMode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tcltk-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tcltk-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tkProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tkStartGUI.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.dir.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tk_choose.files.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tk_messageBox.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tk_select.list.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tcltk/html/tkpager.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/CRANtools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/HTMLheader.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/HTMLlinks.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/QC.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/R.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rcmd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rd2HTML.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rd2txt_options.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/RdTextFilter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rdiff.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rdindex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/Rdutils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/SweaveTeXFilter.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/add_datalist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/assertCondition.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/basetools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/bibstyle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/buildVignette.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/buildVignettes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/charsets.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkFF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkMD5sums.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkPoFiles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkRd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkRdaFiles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkSHA256sums.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkTnF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/checkVignettes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/check_packages_in_dir.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/codoc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/compactPDF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/delimMatch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/dependsOnPkgs.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/doitools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/encoded.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/fileutils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/find_gs_cmd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/getVignetteInfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/licensetools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/loadRdMacros.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/makeLazyLoading.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/make_translations_pkg.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/makevars.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/matchConcordance.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/md5sum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/package_dependencies.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/package_native_routine_registration_skeleton.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/parseLatex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/parse_Rd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/pkg2HTML.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/print.via.format.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/pskill.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/psnice.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/read.00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/sha256sum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/showNonASCII.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/startDynamicHelp.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/testInstalledPackage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/texi2dvi.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/toHTML.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/toRd.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/toTitleCase.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/tools-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/tools-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/tools-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/undoc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/updatePACKAGES.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/update_pkg_po.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/urltools.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/userdir.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/vignetteEngine.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/vignetteInfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/writePACKAGES.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/tools/html/xgettext.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/00Index.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/BATCH.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/COMPILE.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/DLL.version.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/INSTALL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/LINK.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/PkgUtils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Question.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/REMOVE.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/RHOME.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/RShowDoc.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/RSiteSearch.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Rconsole.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Rprof.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Rprofmem.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Rscript.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Rtangle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/RweaveLatex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/SHLIB.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/Sweave.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/SweaveGetSourceName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/SweaveSyntConv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/SweaveUtils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/URLencode.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/View.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/adist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/alarm.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/apropos.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/aregexec.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/arrangeWindows.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/askYesNo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/aspell-utils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/aspell.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/available.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/bibentry.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/bitstring.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/browseEnv.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/browseURL.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/browseVignettes.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/bug.report.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/capture.output.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/changedFiles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/charClass.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/choose.dir.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/choose.files.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/chooseBioCmirror.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/chooseCRANmirror.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/citEntry.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/citation.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/cite.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/clipboard.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/close.socket.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/combn.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/compareVersion.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/contrib.url.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/count.fields.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/create.post.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/data.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/dataentry.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/debugcall.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/debugger.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/demo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/download.file.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/download.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/edit.data.frame.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/edit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/example.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/file.edit.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/filetest.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/findCRANmirror.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/findLineNum.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/fix.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/flush.console.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/format.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getAnywhere.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getFromNamespace.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getParseData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getS3method.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getWindowsHandle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/getWindowsHandles.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/glob2rx.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/globalVariables.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/hasName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/hashtab.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/head.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/help.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/help.request.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/help.search.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/help.start.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/hsearch-utils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/install.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/installed.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/isS3method.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/isS3stdGen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/localeToCharset.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/ls_str.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/maintainer.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/make.packages.html.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/make.socket.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/memory.size.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/menu.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/methods.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/mirrorAdmin.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/modifyList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/news.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/nsl.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/object.size.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/package.skeleton.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/packageDescription.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/packageName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/packageStatus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/page.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/person.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/personList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/process.events.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/prompt.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/promptData.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/promptPackage.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/rcompgen.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/read.DIF.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/read.fortran.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/read.fwf.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/read.socket.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/read.table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/readRegistry.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/recover.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/relist.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/remove.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/removeSource.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/roman.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/rtags.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/savehistory.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/select.list.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/sessionInfo.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/setRepositories.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/setWindowTitle.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/shortPathName.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/sourceutils.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/stack.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/str.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/strcapture.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/summaryRprof.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/tar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/toLatex.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/txtProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/type.convert.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/untar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/unzip.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/update.packages.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/upgrade.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/url.show.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/utils-defunct.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/utils-deprecated.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/utils-internal.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/utils-package.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/vignette.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/warnErrList.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/winDialog.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/winMenus.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/winProgressBar.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/winextras.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/write.table.html + for i in /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/*/html/*.html + sed -i 's|\..\/\..\/..\/doc|/usr/share/doc/R|g' /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/utils/html/zip.html + chmod +x /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/R/sh/echo.sh + chmod +x /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/BATCH /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/COMPILE /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/INSTALL /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/LINK /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/R /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/REMOVE /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rcmd /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rd2pdf /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rdconv /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rdiff /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rprof /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rscript /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/SHLIB /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Stangle /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Sweave /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/build /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/check /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/config /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/exec /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/javareconf /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/libtool /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/mkinstalldirs /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/pager /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/rtags + chmod -x /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/library/mgcv/CITATION /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/doc/R/CAPABILITIES + '[' '!' -d /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/include ']' ~/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R ~/build/BUILD/R-4.6.2 + pushd /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R + ln -s ../../include/R include + popd ~/build/BUILD/R-4.6.2 + for i in tex/latex bibtex/bib bibtex/bst + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/tex/latex + cd /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/tex/latex + ln -s /usr/share/R/texmf/tex/latex R + for i in tex/latex bibtex/bib bibtex/bst + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/bibtex/bib + cd /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/bibtex/bib + ln -s /usr/share/R/texmf/bibtex/bib R + for i in tex/latex bibtex/bib bibtex/bst + mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/bibtex/bst + cd /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/texlive/texmf-dist/bibtex/bst + ln -s /usr/share/R/texmf/bibtex/bst R + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 4.6.2-1.el10 --unique-debug-suffix -4.6.2-1.el10.x86_64 --unique-debug-src-base R-4.6.2-1.el10.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/R-4.6.2 find-debuginfo: starting Extracting debug info from 34 files DWARF-compressing 33 files sepdebugcrcfix: Updated 33 CRC32s, 0 CRC32s did match. Creating .debug symlinks for symlinks to ELF files Copying sources found by 'debugedit -l' to /usr/src/debug/R-4.6.2-1.el10.x86_64 find-debuginfo: done + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs --files /usr/lib64/R/bin/ mangling shebang in /usr/bin/R from /bin/sh to #!/usr/bin/sh mangling shebang in /usr/share/R/sh/echo.sh from /bin/sh to #!/usr/bin/sh + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-rpm-in-distinfo + env /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 -j2 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.g2TkMA + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 ' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Wp,-U_FORTIFY_SOURCE,-D_FORTIFY_SOURCE=3 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -march=x86-64-v3 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -mtls-dialect=gnu2 -I/usr/lib64/gfortran/modules ' + export FCFLAGS + VALAFLAGS=-g + export VALAFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,pack-relative-relocs -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-hardened-ld-errors -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 ' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd R-4.6.2 + ulimit -s 16384 + TZ=Europe/Paris + make check make[1]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests/Examples' Testing examples for package ‘base’ Testing examples for package ‘tools’ comparing ‘tools-Ex.Rout’ to ‘tools-Ex.Rout.save’ ... OK Testing examples for package ‘utils’ Testing examples for package ‘grDevices’ comparing ‘grDevices-Ex.Rout’ to ‘grDevices-Ex.Rout.save’ ... OK Testing examples for package ‘graphics’ comparing ‘graphics-Ex.Rout’ to ‘graphics-Ex.Rout.save’ ... OK Testing examples for package ‘stats’ comparing ‘stats-Ex.Rout’ to ‘stats-Ex.Rout.save’ ... OK Testing examples for package ‘datasets’ comparing ‘datasets-Ex.Rout’ to ‘datasets-Ex.Rout.save’ ... OK Testing examples for package ‘methods’ Testing examples for package ‘grid’ comparing ‘grid-Ex.Rout’ to ‘grid-Ex.Rout.save’ ... OK Testing examples for package ‘splines’ comparing ‘splines-Ex.Rout’ to ‘splines-Ex.Rout.save’ ... OK Testing examples for package ‘stats4’ comparing ‘stats4-Ex.Rout’ to ‘stats4-Ex.Rout.save’ ... OK Testing examples for package ‘tcltk’ Testing examples for package ‘compiler’ Testing examples for package ‘parallel’ make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests/Examples' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running strict specific tests make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'eval-etc.R' ... OK comparing 'eval-etc.Rout' to './eval-etc.Rout.save' ... OK running code in 'simple-true.R' ... OK comparing 'simple-true.Rout' to './simple-true.Rout.save' ... OK running code in 'arith-true.R' ... OK comparing 'arith-true.Rout' to './arith-true.Rout.save' ... OK running code in 'arith.R' ... OK comparing 'arith.Rout' to './arith.Rout.save' ... OK running code in 'lm-tests.R' ... OK comparing 'lm-tests.Rout' to './lm-tests.Rout.save' ... OK running code in 'ok-errors.R' ... OK comparing 'ok-errors.Rout' to './ok-errors.Rout.save' ... OK running code in 'method-dispatch.R' ... OK comparing 'method-dispatch.Rout' to './method-dispatch.Rout.save' ... OK running code in 'any-all.R' ... OK comparing 'any-all.Rout' to './any-all.Rout.save' ... OK running code in 'structure.R' ... OK comparing 'structure.Rout' to './structure.Rout.save' ... OK running code in 'd-p-q-r-tests.R' ... OK comparing 'd-p-q-r-tests.Rout' to './d-p-q-r-tests.Rout.save' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' running sloppy specific tests make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'complex.R' ... OK comparing 'complex.Rout' to './complex.Rout.save' ... OK running code in 'print-tests.R' ... OK comparing 'print-tests.Rout' to './print-tests.Rout.save' ... OK running code in 'lapack.R' ... OK comparing 'lapack.Rout' to './lapack.Rout.save' ... OK running code in 'datasets.R' ... OK comparing 'datasets.Rout' to './datasets.Rout.save' ... OK running code in 'datetime.R' ... OK comparing 'datetime.Rout' to './datetime.Rout.save' ... OK running code in 'iec60559.R' ... OK comparing 'iec60559.Rout' to './iec60559.Rout.save' ... OK running code in 'eval-etc-2.R' ... OK comparing 'eval-etc-2.Rout' to './eval-etc-2.Rout.save' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' checking Sys.timezone ... make[4]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'timezone.R' ... OK make[4]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running regression tests ... make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'array-subset.R' ... OK running code in 'classes-methods.R' ... OK running code in 'reg-tests-1a.R' ... OK running code in 'reg-tests-1b.R' ... OK running code in 'reg-tests-1c.R' ... OK running code in 'reg-tests-1d.R' ... OK running code in 'reg-tests-1e.R' ... OK running code in 'reg-tests-2.R' ... OK comparing 'reg-tests-2.Rout' to './reg-tests-2.Rout.save' ... OK running code in 'reg-examples1.R' ... OK running code in 'reg-examples2.R' ... OK running code in 'reg-packages.R' ... OK running code in 'p-qbeta-strict-tst.R' ... OK running code in 'd-p-q-r-tst-2.R' ... OK running code in 'r-strict-tst.R' ... OK running code in 'reg-IO.R' ... OK comparing 'reg-IO.Rout' to './reg-IO.Rout.save' ... OK running code in 'reg-IO2.R' ... OK comparing 'reg-IO2.Rout' to './reg-IO2.Rout.save' ... OK running code in 'reg-plot.R' ... OK comparing 'reg-plot.pdf' to './reg-plot.pdf.save' ... OK running code in 'reg-S4.R' ... OK comparing 'reg-S4.Rout' to './reg-S4.Rout.save' ... OK running code in 'reg-S4-examples.R' ... OK running code in 'reg-BLAS.R' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'reg-encodings.R' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'reg-tests-3.R' ... OK comparing 'reg-tests-3.Rout' to './reg-tests-3.Rout.save' ... OK running code in 'reg-examples3.R' ... OK comparing 'reg-examples3.Rout' to './reg-examples3.Rout.save' ... OK running tests of plotting Latin-1 expect failure or some differences if not in a Latin-1 or UTF-8 locale running code in 'reg-plot-latin1.R' ... OK comparing 'reg-plot-latin1.pdf' to './reg-plot-latin1.pdf.save' ... OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running tests of Internet functions make[3]: Entering directory '/builddir/build/BUILD/R-4.6.2/tests' running code in 'internet.R' ... OK comparing 'internet.Rout' to './internet.Rout.save' ...8,10c8,153 < Warning message: < In nsl("cran.r-project.org") : < nsl() was unable to resolve host 'cran.r-project.org' --- > > > > ## As virtually all http sites redirect to https:, we only test the latter > > > > # test do_download (and "record" #{packages}): > > ap <- available.packages(contrib.url("https://cran.r-project.org")) > > ## IGNORE_RDIFF_END > > > > # test url connections > > zz <- url("https://cran.r-project.org/") > > readLines(zz) > [1] "" > [2] "" > [3] "" > [4] "The Comprehensive R Archive Network" > [5] "" > [6] "" > [7] "" > [8] "" > [9] "" > [10] "" > [11] "" > [12] "" > [13] "" > [14] "" > [15] "" > [16] "" > [17] "" > [18] "<h1>The Comprehensive R Archive Network</h1>" > [19] "" > [20] "Your browser seems not to support frames," > [21] "here is the <A href=\"navbar.html\">contents page</A> of CRAN." > [22] "" > [23] "" > [24] "" > > close(zz) > > > > # and via read.table, using an r-project.org site > > read.table("https://developer.R-project.org/inet-tests/ch11b.dat") > V1 V2 V3 V4 V5 > 1 1 307 930 36.58 0 > 2 2 307 940 36.73 0 > 3 3 307 950 36.93 0 > 4 4 307 1000 37.15 0 > 5 5 307 1010 37.23 0 > 6 6 307 1020 37.24 0 > 7 7 307 1030 37.24 0 > 8 8 307 1040 36.90 0 > 9 9 307 1050 36.95 0 > 10 10 307 1100 36.89 0 > 11 11 307 1110 36.95 0 > 12 12 307 1120 37.00 0 > 13 13 307 1130 36.90 0 > 14 14 307 1140 36.99 0 > 15 15 307 1150 36.99 0 > 16 16 307 1200 37.01 0 > 17 17 307 1210 37.04 0 > 18 18 307 1220 37.04 0 > 19 19 307 1230 37.14 0 > 20 20 307 1240 37.07 0 > 21 21 307 1250 36.98 0 > 22 22 307 1300 37.01 0 > 23 23 307 1310 36.97 0 > 24 24 307 1320 36.97 0 > 25 25 307 1330 37.12 0 > 26 26 307 1340 37.13 0 > 27 27 307 1350 37.14 0 > 28 28 307 1400 37.15 0 > 29 29 307 1410 37.17 0 > 30 30 307 1420 37.12 0 > 31 31 307 1430 37.12 0 > 32 32 307 1440 37.17 0 > 33 33 307 1450 37.28 0 > 34 34 307 1500 37.28 0 > 35 35 307 1510 37.44 0 > 36 36 307 1520 37.51 0 > 37 37 307 1530 37.64 0 > 38 38 307 1540 37.51 0 > 39 39 307 1550 37.98 1 > 40 40 307 1600 38.02 1 > 41 41 307 1610 38.00 1 > 42 42 307 1620 38.24 1 > 43 43 307 1630 38.10 1 > 44 44 307 1640 38.24 1 > 45 45 307 1650 38.11 1 > 46 46 307 1700 38.02 1 > 47 47 307 1710 38.11 1 > 48 48 307 1720 38.01 1 > 49 49 307 1730 37.91 1 > 50 50 307 1740 37.96 1 > 51 51 307 1750 38.03 1 > 52 52 307 1800 38.17 1 > 53 53 307 1810 38.19 1 > 54 54 307 1820 38.18 1 > 55 55 307 1830 38.15 1 > 56 56 307 1840 38.04 1 > 57 57 307 1850 37.96 1 > 58 58 307 1900 37.84 1 > 59 59 307 1910 37.83 1 > 60 60 307 1920 37.84 1 > 61 61 307 1930 37.74 1 > 62 62 307 1940 37.76 1 > 63 63 307 1950 37.76 1 > 64 64 307 2000 37.64 1 > 65 65 307 2010 37.63 1 > 66 66 307 2020 38.06 1 > 67 67 307 2030 38.19 1 > 68 68 307 2040 38.35 1 > 69 69 307 2050 38.25 1 > 70 70 307 2100 37.86 1 > 71 71 307 2110 37.95 1 > 72 72 307 2120 37.95 1 > 73 73 307 2130 37.76 1 > 74 74 307 2140 37.60 1 > 75 75 307 2150 37.89 1 > 76 76 307 2200 37.86 1 > 77 77 307 2210 37.71 1 > 78 78 307 2220 37.78 1 > 79 79 307 2230 37.82 1 > 80 80 307 2240 37.76 1 > 81 81 307 2250 37.81 1 > 82 82 307 2300 37.84 1 > 83 83 307 2310 38.01 1 > 84 84 307 2320 38.10 1 > 85 85 307 2330 38.15 1 > 86 86 307 2340 37.92 1 > 87 87 307 2350 37.64 1 > 88 88 308 0 37.70 1 > 89 89 308 10 37.46 1 > 90 90 308 20 37.41 1 > 91 91 308 30 37.46 1 > 92 92 308 40 37.56 1 > 93 93 308 50 37.55 1 > 94 94 308 100 37.75 1 > 95 95 308 110 37.76 1 > 96 96 308 120 37.73 1 > 97 97 308 130 37.77 1 > 98 98 308 140 38.01 1 > 99 99 308 150 38.04 1 > 100 100 308 200 38.07 1 > > > > showConnections(all = TRUE) > description class mode text isopen can read can write > 0 "stdin" "terminal" "r" "text" "opened" "yes" "no" > 1 "stdout" "terminal" "w" "text" "opened" "no" "yes" > 2 "stderr" "terminal" "w" "text" "opened" "no" "yes" > > OK make[3]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[2]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' make[1]: Leaving directory '/builddir/build/BUILD/R-4.6.2/tests' + RPM_EC=0 ++ jobs -p + exit 0 Processing files: R-4.6.2-1.el10.x86_64 Processing files: R-core-4.6.2-1.el10.x86_64 warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/bin/Rscript and /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rscript warning: absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bib/R -> /usr/share/R/texmf/bibtex/bib warning: absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bst/R -> /usr/share/R/texmf/bibtex/bst warning: absolute symlink: /usr/share/texlive/texmf-dist/tex/latex/R -> /usr/share/R/texmf/tex/latex Provides: R(ABI) = 4.6 R(KernSmooth) = 2.23.27 R(MASS) = 7.3.66 R(Matrix) = 1.7.6 R(base) = 4.6.2 R(boot) = 1.3.32 R(class) = 7.3.24 R(cluster) = 2.1.8.3 R(codetools) = 0.2.20 R(compiler) = 4.6.2 R(datasets) = 4.6.2 R(foreign) = 0.8.92 R(grDevices) = 4.6.2 R(graphics) = 4.6.2 R(grid) = 4.6.2 R(lattice) = 0.23.1 R(methods) = 4.6.2 R(mgcv) = 1.9.4 R(nlme) = 3.1.171 R(nnet) = 7.3.21 R(parallel) = 4.6.2 R(rpart) = 4.1.27 R(spatial) = 7.3.19 R(splines) = 4.6.2 R(stats) = 4.6.2 R(stats4) = 4.6.2 R(survival) = 3.8.12 R(tcltk) = 4.6.2 R(tools) = 4.6.2 R(translations) = 4.6.2 R(utils) = 4.6.2 R-KernSmooth = 2.23.27 R-MASS = 7.3.66 R-Matrix = 1.7.6 R-base = 4.6.2 R-boot = 1.3.32 R-class = 7.3.24 R-cluster = 2.1.8.3 R-codetools = 0.2.20 R-compiler = 4.6.2 R-core = 4.6.2-1.el10 R-core(x86-64) = 4.6.2-1.el10 R-datasets = 4.6.2 R-foreign = 0.8.92 R-grDevices = 4.6.2 R-graphics = 4.6.2 R-grid = 4.6.2 R-lattice = 0.23.1 R-methods = 4.6.2 R-mgcv = 1.9.4 R-nlme = 3.1.171 R-nnet = 7.3.21 R-parallel = 4.6.2 R-rpart = 4.1.27 R-spatial = 7.3.19 R-splines = 4.6.2 R-stats = 4.6.2 R-stats4 = 4.6.2 R-survival = 3.8.12 R-tcltk = 4.6.2 R-tools = 4.6.2 R-translations = 4.6.2 R-utils = 4.6.2 config(R-core) = 4.6.2-1.el10 libR.so()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /bin/sh /usr/bin/sh ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.2.5)(64bit) libR.so()(64bit) libX11.so.6()(64bit) libXmu.so.6()(64bit) libXt.so.6()(64bit) libbz2.so.1()(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.11)(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.16)(64bit) libc.so.6(GLIBC_2.17)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.27)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.2)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.33)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.38)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.6)(64bit) libc.so.6(GLIBC_2.7)(64bit) libc.so.6(GLIBC_2.8)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libcairo.so.2()(64bit) libcurl.so.4()(64bit) libdeflate.so.0()(64bit) libflexiblas.so.3()(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libgobject-2.0.so.0()(64bit) libgomp.so.1()(64bit) libgomp.so.1(GOMP_1.0)(64bit) libgomp.so.1(GOMP_4.0)(64bit) libgomp.so.1(GOMP_4.5)(64bit) libgomp.so.1(OMP_1.0)(64bit) libicui18n.so.74()(64bit) libicuuc.so.74()(64bit) libjpeg.so.62()(64bit) libjpeg.so.62(LIBJPEG_6.2)(64bit) liblzma.so.5()(64bit) liblzma.so.5(XZ_5.0)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.35)(64bit) libm.so.6(GLIBC_2.38)(64bit) libpango-1.0.so.0()(64bit) libpangocairo-1.0.so.0()(64bit) libpcre2-8.so.0()(64bit) libpng16.so.16()(64bit) libpng16.so.16(PNG16_0)(64bit) libreadline.so.8()(64bit) libtcl8.6.so()(64bit) libtiff.so.6()(64bit) libtiff.so.6(LIBTIFF_4.0)(64bit) libtirpc.so.3()(64bit) libtirpc.so.3(TIRPC_0.3.0)(64bit) libtk8.6.so()(64bit) libtre.so.5()(64bit) libz.so.1()(64bit) libzstd.so.1()(64bit) rtld(GNU_HASH) Obsoletes: R-Matrix < 0.999375-7 Processing files: R-core-devel-4.6.2-1.el10.x86_64 Provides: R-Matrix-devel = 1.7.6 R-core-devel = 4.6.2-1.el10 R-core-devel(x86-64) = 4.6.2-1.el10 pkgconfig(libR) = 4.6.2 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/pkg-config Obsoletes: R-Matrix-devel < 0.999375-7 Recommends: devscripts-checkbashisms texinfo-tex texlive tidy Processing files: R-devel-4.6.2-1.el10.x86_64 Processing files: R-java-4.6.2-1.el10.x86_64 Processing files: R-java-devel-4.6.2-1.el10.x86_64 Processing files: libRmath-4.6.2-1.el10.x86_64 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.VVjeC8 + umask 022 + cd /builddir/build/BUILD + cd R-4.6.2 + LICENSEDIR=/builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/licenses/libRmath + export LC_ALL= + LC_ALL= + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/licenses/libRmath + cp -pr /builddir/build/BUILD/R-4.6.2/doc/COPYING /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/share/licenses/libRmath + RPM_EC=0 ++ jobs -p + exit 0 Provides: libRmath = 4.6.2-1.el10 libRmath(x86-64) = 4.6.2-1.el10 libRmath.so()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_ABI_DT_RELR)(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.23)(64bit) libm.so.6(GLIBC_2.29)(64bit) libm.so.6(GLIBC_2.38)(64bit) rtld(GNU_HASH) Processing files: libRmath-devel-4.6.2-1.el10.x86_64 Provides: libRmath-devel = 4.6.2-1.el10 libRmath-devel(x86-64) = 4.6.2-1.el10 pkgconfig(libRmath) = 4.6.2 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/pkg-config Processing files: libRmath-static-4.6.2-1.el10.x86_64 Provides: libRmath-static = 4.6.2-1.el10 libRmath-static(x86-64) = 4.6.2-1.el10 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-debugsource-4.6.2-1.el10.x86_64 Provides: R-debugsource = 4.6.2-1.el10 R-debugsource(x86-64) = 4.6.2-1.el10 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: R-debuginfo-4.6.2-1.el10.x86_64 Provides: R-debuginfo = 4.6.2-1.el10 R-debuginfo(x86-64) = 4.6.2-1.el10 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.6.2-1.el10 Processing files: R-core-debuginfo-4.6.2-1.el10.x86_64 warning: Duplicate build-ids /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib/debug/usr/bin/Rscript-4.6.2-1.el10.x86_64.debug and /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib/debug/usr/lib64/R/bin/Rscript-4.6.2-1.el10.x86_64.debug Provides: R-core-debuginfo = 4.6.2-1.el10 R-core-debuginfo(x86-64) = 4.6.2-1.el10 debuginfo(build-id) = 0bdf5d19c154f89c762df5a8c20e721879bcc713 debuginfo(build-id) = 18390d20ece29717c3e71c1f2b750207c258efb8 debuginfo(build-id) = 1af9d99cc3699441f58cedf72a7b6ab857b56f28 debuginfo(build-id) = 1c937159993ec456906b967781fa3bd15ef5a93b debuginfo(build-id) = 2335487317a4129c61acfecad7538b194fa206cb debuginfo(build-id) = 25dbe42d02d9b2aea380403853bfd699bb3f5f99 debuginfo(build-id) = 316d2f1df02173b5787a3abf3ab01e697ffcab06 debuginfo(build-id) = 4a5dd700a883e3e3477fbb4d68b311ad8d818c0d debuginfo(build-id) = 4e25f973434362e9841fd03b9baa3a0326fc8cc1 debuginfo(build-id) = 527474669d9092dd1bb048916ecfaebaaac20a77 debuginfo(build-id) = 52cc183c03558a5f0f0dabe93f3c3ea369946b1e debuginfo(build-id) = 5d597185907fa2ed3afd48940ddcc6a69da94624 debuginfo(build-id) = 626a516dcb880132dc9aeff6524d9d3e5b9092f5 debuginfo(build-id) = 70b62abca87b9602a8c5562e975748ddb03d8a18 debuginfo(build-id) = 752ab7c7e2635b572542c5e6371f552babf518c3 debuginfo(build-id) = 75ba14044bacc7ee916b3d228ea4688117f2925d debuginfo(build-id) = 7837a1235685da360b1de145a2537773170a9c49 debuginfo(build-id) = 86841025ddb6a98a97a9c689de65982c7e6f064e debuginfo(build-id) = 8c8314e57c67696d05ef74d2b27e0af97a2f775e debuginfo(build-id) = 912ad9a0299f6d5a8d0edb9054e18e231c656837 debuginfo(build-id) = 9d187310d801816465683eed367e06d5dd5c2f02 debuginfo(build-id) = a405ccdc5e1edd1257598cdfb99fc3cd018b8c2d debuginfo(build-id) = ae7f648b45d3e8f173f2ce677b5188fc482f8200 debuginfo(build-id) = b990ed0cedf6ffa81a1553ceb6b1ac8a49964c0f debuginfo(build-id) = c24a01059241f038a33d83937c655a0ce5cad597 debuginfo(build-id) = cc5c6905303cded8a3a950956e94787494493220 debuginfo(build-id) = da24be823640494f39c321c1059034a411c0dcc0 debuginfo(build-id) = e1a7cd494b8fc124f64f4289d6f05bc444a3e458 debuginfo(build-id) = e4c1839abf3146a7f88a2d589bf56dcfeed9aac3 debuginfo(build-id) = e55eedd45f183325bf10b5591c5c7005809a3d6f debuginfo(build-id) = f453f5863a6a8eaf47c182c2a2d0a00c8e90ac10 debuginfo(build-id) = nilnil libR.so-4.6.2-1.el10.x86_64.debug()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.6.2-1.el10 Processing files: libRmath-debuginfo-4.6.2-1.el10.x86_64 Provides: debuginfo(build-id) = 5902df7250bd55f02c9c9c6214cf326dbc5bbb5c libRmath-debuginfo = 4.6.2-1.el10 libRmath-debuginfo(x86-64) = 4.6.2-1.el10 libRmath.so-4.6.2-1.el10.x86_64.debug()(64bit) Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: R-debugsource(x86-64) = 4.6.2-1.el10 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64 Wrote: /builddir/build/RPMS/R-core-debuginfo-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-debugsource-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-debuginfo-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-static-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-core-devel-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-debuginfo-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/libRmath-devel-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-devel-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-java-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-java-devel-4.6.2-1.el10.x86_64.rpm Wrote: /builddir/build/RPMS/R-core-4.6.2-1.el10.x86_64.rpm RPM build warnings: Duplicate build-ids /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/bin/Rscript and /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib64/R/bin/Rscript absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bib/R -> /usr/share/R/texmf/bibtex/bib absolute symlink: /usr/share/texlive/texmf-dist/bibtex/bst/R -> /usr/share/R/texmf/bibtex/bst absolute symlink: /usr/share/texlive/texmf-dist/tex/latex/R -> /usr/share/R/texmf/tex/latex Duplicate build-ids /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib/debug/usr/bin/Rscript-4.6.2-1.el10.x86_64.debug and /builddir/build/BUILDROOT/R-4.6.2-1.el10.x86_64/usr/lib/debug/usr/lib64/R/bin/Rscript-4.6.2-1.el10.x86_64.debug Finish: rpmbuild R-4.6.2-1.el10.src.rpm Finish: build phase for R-4.6.2-1.el10.src.rpm INFO: chroot_scan: 3 files copied to /var/lib/copr-rpmbuild/results/chroot_scan INFO: /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.rpm.log /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.librepo.log /var/lib/mock/centos-stream-10-x86_64-1793279136.502078/root/var/log/dnf.log INFO: chroot_scan: creating tarball /var/lib/copr-rpmbuild/results/chroot_scan.tar.gz /bin/tar: Removing leading `/' from member names INFO: Done(/var/lib/copr-rpmbuild/results/R-4.6.2-1.el10.src.rpm) Config(child) 24 minutes 40 seconds INFO: Results and/or logs in: /var/lib/copr-rpmbuild/results INFO: Cleaning up build root ('cleanup_on_success=True') Start: clean chroot INFO: unmounting tmpfs. Finish: clean chroot Finish: run Running RPMResults tool Package info: { "packages": [ { "name": "R-java-devel", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-java", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-core", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "libRmath-static", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "libRmath-debuginfo", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-debuginfo", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-core-devel", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-devel", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "libRmath-devel", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R-core-debuginfo", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "R", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "src" }, { "name": "R-debugsource", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" }, { "name": "libRmath", "epoch": null, "version": "4.6.2", "release": "1.el10", "arch": "x86_64" } ] } RPMResults finished